Return a data frame of rOpenSci packages
Usage
pkgs(
url = "https://ropensci.github.io/roregistry/registry.json",
which = "active",
return = "sub"
)Examples
pkgs()
#> name maintainer
#> 1 assertr Tony Fischetti
#> 2 auk Matthew Strimas-Mackey
#> 3 babeldown Maëlle Salmon
#> 4 babelquarto Maëlle Salmon
#> 5 commonmark Jeroen Ooms
#> 6 commonmetar Maëlle Salmon
#> 7 credentials Jeroen Ooms
#> 8 emodnet.wfs Salvador Fernández-Bejarano
#> 9 frictionless Peter Desmet
#> 10 gert Jeroen Ooms
#> 11 gitcellar Maëlle Salmon
#> 12 goodpractice Mark Padgham
#> 13 pkgcheck Mark Padgham
#> 14 pkgmatch Mark Padgham
#> 15 pkgreviewr Maëlle Salmon
#> 16 pkgstats Mark Padgham
#> 17 promoutils Steffi LaZerte
#> 18 repometrics Mark Padgham
#> 19 roreviewapi Mark Padgham
#> 20 rotemplate Maëlle Salmon
#> 21 rsi Michael Mahoney
#> 22 saperlipopette Maëlle Salmon
#> 23 sodium Jeroen Ooms
#> 24 treeio Guangchuang Yu
#> 25 wmm Will Frierson
#> 26 agroclimatico Paola Corrales
#> 27 allcontributors Mark Padgham
#> 28 allodb Erika Gonzalez-Akre
#> 29 antanym Ben Raymond
#> 30 antiword Jeroen Ooms
#> 31 aorsf Byron Jaeger
#> 32 arkdb Carl Boettiger
#> 33 aRxiv Karl Broman
#> 34 av Jeroen Ooms
#> 35 awardFindR Michael McCall
#> 36 babette Richèl J.C. Bilderbeek
#> 37 baRcodeR Robert Colautti
#> 38 baRulho Marcelo Araya-Salas
#> 39 BaseSet Lluís Revilla Sancho
#> 40 beastier Richèl J.C. Bilderbeek
#> 41 beautier Richèl J.C. Bilderbeek
#> 42 bib2df Gianluca Baio
#> 43 bibtex James Joseph Balamuta
#> 44 bikedata Mark Padgham
#> 45 binman Jonathan Völkle
#> 46 biomartr Hajk-Georg Drost
#> 47 bold Salix Dubois
#> 48 bowerbird Ben Raymond
#> 49 brranching Luna L Sanchez Reyes
#> 50 butterfly Thomas Zwagerman
#> 51 c14bazAAR Clemens Schmid
#> 52 c3dr Simon Nolte
#> 53 camsRad Lukas Lundstrom
#> 54 canaper Joel H. Nitta
#> 55 cde Rob Briers
#> 56 censo2017 Mauricio Vargas
#> 57 cffr Diego Hernangómez
#> 58 charlatan Roel M. Hogervorst
#> 59 chirps Kauê de Sousa
#> 60 chlorpromazineR Eric Brown
#> 61 chopin Insang Song
#> 62 chromer Karl W Broman
#> 63 circle Patrick Schratz
#> 64 citecorp David Selby
#> 65 ckanr Francisco Alves
#> 66 cld2 Jeroen Ooms
#> 67 cld3 Jeroen Ooms
#> 68 codemetar Carl Boettiger
#> 69 coder Erik Bulow
#> 70 colocr Mahmoud Ahmed
#> 71 comtradr Paul Bochtler
#> 72 concstats Andreas Schneider
#> 73 CoordinateCleaner Alexander Zizka
#> 74 CRediTas Josep Pueyo-Ros
#> 75 cRegulome Mahmoud Ahmed
#> 76 crul Scott Chamberlain
#> 77 cyphr Rich FitzJohn
#> 78 daiquiri T. Phuong Quan
#> 79 dataaimsr Diego R. Barneche
#> 80 datapack Matthew B. Jones
#> 81 DataPackageR Dave Slager
#> 82 DataSpaceR Jason Taylor
#> 83 dataspice Bryce Mecum
#> 84 datefixR Nathan Constantine-Cooke
#> 85 dbparser Mohammed Ali
#> 86 dendroNetwork Ronald Visser
#> 87 dittodb Jonathan Keane
#> 88 DoOR.data Daniel Münch
#> 89 DoOR.functions Daniel Münch
#> 90 drake William Michael Landau
#> 91 dwctaxon Joel H. Nitta
#> 92 dynamite Santtu Tikka
#> 93 EDIutils Colin Smith
#> 94 eDNAjoint Abigail G. Keller
#> 95 eia Matthew Hoff
#> 96 elastic Scott Chamberlain
#> 97 EML Carl Boettiger
#> 98 emld Carl Boettiger
#> 99 EndoMineR Sebastian Zeki
#> 100 epair G.L. Orozco-Mulfinger
#> 101 eph Carolina Pradier
#> 102 epubr Matthew Leonawicz
#> 103 essurvey Jorge Cimentada
#> 104 europepmc Najko Jahn
#> 105 excluder Jeffrey R. Stevens
#> 106 exoplanets Tyler Littlefield
#> 107 ezknitr Dean Attali
#> 108 fastMatMR Rohit Goswami
#> 109 FedData R. Kyle Bocinsky
#> 110 fellingdater Kristof Haneca
#> 111 fingertipsR Annabel Westermann
#> 112 fireexposuR Air Forbes
#> 113 fluidsynth Jeroen Ooms
#> 114 forcis Nicolas Casajus
#> 115 gbifdb Carl Boettiger
#> 116 gendercoder Yaoxiang Li
#> 117 geojson Michael Sumner
#> 118 geojsonio Michael Mahoney
#> 119 geonames Barry Rowlingson
#> 120 geotargets Nicholas Tierney
#> 121 getCRUCLdata Adam H. Sparks
#> 122 ghql Mark Padgham
#> 123 gigs Simon R Parker
#> 124 gistr Scott Chamberlain
#> 125 git2r Stefan Widgren
#> 126 git2rdata Thierry Onkelinx
#> 127 gitignore Philippe Massicotte
#> 128 gittargets William Michael Landau
#> 129 GLMMcosinor Rex Parsons
#> 130 googleLanguageR Mark Edmondson
#> 131 grainchanger Laura Graham
#> 132 graphql Jeroen Ooms
#> 133 GSODR Adam H. Sparks
#> 134 gtexr Alasdair Warwick
#> 135 gutenbergr Jon Harmon
#> 136 handlr Brenton M. Wiernik
#> 137 hddtools Dorothea Hug Peter
#> 138 helminthR Tad Dallas
#> 139 historydata Lincoln Mullen
#> 140 hoardr Tamás Stirling
#> 141 hunspell Jeroen Ooms
#> 142 hydroscoper Konstantinos Vantas
#> 143 iheatmapr Alan O'Callaghan
#> 144 ijtiff Rory Nolan
#> 145 internetarchive Lincoln Mullen
#> 146 jagstargets William Michael Landau
#> 147 jenkins Jeroen Ooms
#> 148 jqr Jeroen Ooms
#> 149 jsonld Jeroen Ooms
#> 150 jsonvalidate Rich FitzJohn
#> 151 jstor Thomas Klebel
#> 152 karel Marcos Prunello
#> 153 katex Jeroen Ooms
#> 154 landscapetools Marco Sciaini
#> 155 lightr Hugo Gruson
#> 156 lingtypology George Moroz
#> 157 magick Jeroen Ooms
#> 158 mapmetadata Rachael Stickland
#> 159 mapscanner Mark Padgham
#> 160 mauricer Richèl J.C. Bilderbeek
#> 161 mbquartR Alex Koiter
#> 162 mcbette Richèl J.C. Bilderbeek
#> 163 mctq Daniel Vartanian
#> 164 medrxivr Yaoxiang Li
#> 165 melt Eunseop Kim
#> 166 MODIStsp Luigi Ranghetti
#> 167 mregions2 Salvador Jesús Fernández Bejarano
#> 168 MtreeRing Jingning Shi
#> 169 naijR Victor Ordu
#> 170 nasapower Adam H. Sparks
#> 171 neotoma Simon J. Goring
#> 172 NLMR Marco Sciaini
#> 173 nlrx Sebastian Hanss
#> 174 nodbi Ralf Herold
#> 175 nomisr Evan Odell
#> 176 npi Frank Farach
#> 177 nuts Moritz Hennicke
#> 178 oai Michal Bojanowski
#> 179 occCite Hannah L. Owens
#> 180 ohun Marcelo Araya-Salas
#> 181 onekp Dhakal Rijan
#> 182 openalexR Massimo Aria
#> 183 opencage Daniel Possenriede
#> 184 opencv Jeroen Ooms
#> 185 opentripplanner Malcolm Morgan
#> 186 osfr Aaron Wolen
#> 187 osmapiR Joan Maspons
#> 188 osmdata Mark Padgham
#> 189 osmextract Andrea Gilardi
#> 190 osmplotr Mark Padgham
#> 191 outcomerate Rafael Pilliard Hellwig
#> 192 paleobioDB Adrián Castro Insua
#> 193 pangaear Scott Chamberlain
#> 194 pangoling Bruno Nicenboim
#> 195 parzer Alban Sagouis
#> 196 patentsview Christopher Baker
#> 197 pathviewr Vikram B. Baliga
#> 198 pdftools Jeroen Ooms
#> 199 phonfieldwork George Moroz
#> 200 photosearcher Isaac Bravo
#> 201 phruta Cristian Roman Palacios
#> 202 phylocomr Luna Luisa Sanchez Reyes
#> 203 phylogram Shaun Wilkinson
#> 204 phylotaR Shixiang Wang
#> 205 piggyback Carl Boettiger
#> 206 pixelclasser Carlos Real
#> 207 plater Sean Hughes
#> 208 popler Compagnoni Aldo
#> 209 PostcodesioR Eryk Walczak
#> 210 postdoc Jeroen Ooms
#> 211 predictNMB Rex Parsons
#> 212 prism Alan Butler
#> 213 prismjs Jeroen Ooms
#> 214 qpdf Jeroen Ooms
#> 215 quadkeyr Florencia D'Andrea
#> 216 QuadratiK Giovanni Saraceno
#> 217 qualR Mario Gavidia-Calderón
#> 218 qualtRics Julia Silge
#> 219 ramlegacy Kshitiz Gupta
#> 220 rangr Katarzyna Markowska
#> 221 rb3 Wilson Freitas
#> 222 rcites Kevin Cazelles
#> 223 rcrossref Najko Jahn
#> 224 rdatacite Bianca Kramer
#> 225 rdataretriever Henry Senyondo
#> 226 rdflib Carl Boettiger
#> 227 rdhs OJ Watson
#> 228 rdryad Scott Chamberlain
#> 229 readODS Chung-hong Chan
#> 230 rebird Sebastian Pardo
#> 231 RefManageR Mathew W. McLean
#> 232 refsplitr Emilio Bruna
#> 233 ReLTER Alessandro Oggioni
#> 234 rentrez David Winter
#> 235 rerddap Roy Mendelssohn
#> 236 restez Joel H. Nitta
#> 237 rfema Dylan Turner
#> 238 rfishbase Carl Boettiger
#> 239 rfisheries Karthik Ram
#> 240 rgbif John Waller
#> 241 rglobi Jorrit Poelen
#> 242 rgnparser Joel H. Nitta
#> 243 rgpdd Carl Boettiger
#> 244 riem Maëlle Salmon
#> 245 rinat Stéphane Guillou
#> 246 ritis Julia Blum
#> 247 rix Bruno Rodrigues
#> 248 rmangal Kevin Cazelles
#> 249 rnassqs Nicholas Potter
#> 250 rnaturalearth Philippe Massicotte
#> 251 rnaturalearthdata Philippe Massicotte
#> 252 rnaturalearthhires Andy South
#> 253 RNeXML Carl Boettiger
#> 254 roadoi Najko Jahn
#> 255 robotstxt Jordan Bradford
#> 256 rOPTRAM Micha Silver
#> 257 rotl Francois Michonneau
#> 258 rperseus David Ranzolin
#> 259 Rpolyhedra Alejandro Baranek
#> 260 rppo John Deck
#> 261 rredlist William Gearty
#> 262 rrricanes Elin Waring
#> 263 rrricanesdata Tim Trice
#> 264 rsat Unai Pérez - Goya
#> 265 RSelenium Jonathan Völkle
#> 266 rsnps Julia Gustavsen
#> 267 rsvg Jeroen Ooms
#> 268 rtika Sasha Goodman
#> 269 ruODK Florian W. Mayer
#> 270 rusda Franz-Sebastian Krah
#> 271 rvertnet Dave Slager
#> 272 rzmq Jeroen Ooms
#> 273 skimr Elin Waring
#> 274 skynet Filipe Teixeira
#> 275 slopes Robin Lovelace
#> 276 smapr Maxwell Joseph
#> 277 sofa Yaoxiang Li
#> 278 spatsoc Alec L. Robitaille
#> 279 spelling Jeroen Ooms
#> 280 spiro Simon Nolte
#> 281 spocc Hannah Owens
#> 282 ssh Jeroen Ooms
#> 283 stantargets William Michael Landau
#> 284 stats19 Robin Lovelace
#> 285 stplanr Robin Lovelace
#> 286 suppdata William D. Pearse
#> 287 tabulapdf Mauricio Vargas Sepulveda
#> 288 tacmagic Eric Brown
#> 289 tarchetypes William Michael Landau
#> 290 targets William Michael Landau
#> 291 taxa Zachary Foster
#> 292 taxadb Carl Boettiger
#> 293 taxize Zachary Foster
#> 294 taxizedb Tamás Stirling
#> 295 taxlist Miguel Alvarez
#> 296 terrainr Michael Mahoney
#> 297 tesseract Jeroen Ooms
#> 298 textreuse Yaoxiang Li
#> 299 tic Eli Miller
#> 300 tidyhydat Sam Albers
#> 301 tidync Michael Sumner
#> 302 tidypmc Chris Stubben
#> 303 tidyqpcr Edward Wallace
#> 304 tiler Matthew Leonawicz
#> 305 tinkr Zhian N. Kamvar
#> 306 tokenizers Thomas Charlon
#> 307 tracerer Richèl J.C. Bilderbeek
#> 308 tradestatistics Mauricio Vargas
#> 309 traits David LeBauer
#> 310 treebase Carl Boettiger
#> 311 treedata.table Cristian Roman-Palacios
#> 312 treestartr April Wright
#> 313 tsbox Christoph Sax
#> 314 UCSCXenaTools Shixiang Wang
#> 315 unifir Michael Mahoney
#> 316 universe Jeroen Ooms
#> 317 unrtf Jeroen Ooms
#> 318 USAboundaries Lincoln Mullen
#> 319 USAboundariesData Lincoln Mullen
#> 320 vcr Scott Chamberlain
#> 321 virtuoso Carl Boettiger
#> 322 visdat Nicholas Tierney
#> 323 wateRinfo Stijn Van Hoey
#> 324 waywiser Michael Mahoney
#> 325 wdman Jonathan Völkle
#> 326 weathercan Steffi LaZerte
#> 327 weatherOz Rodrigo Pires
#> 328 webchem Tamás Stirling
#> 329 webmockr Scott Chamberlain
#> 330 wikitaxa Zachary Foster
#> 331 workloopR Vikram B. Baliga
#> 332 worrms Bart Vanhoorne.
#> 333 writexl Jeroen Ooms
#> 334 xslt Jeroen Ooms
#> 335 yfR Marcelo Perlin
#> owner repo
#> 1 ropensci assertr
#> 2 CornellLabofOrnithology auk
#> 3 ropensci-review-tools babeldown
#> 4 ropensci-review-tools babelquarto
#> 5 r-lib commonmark
#> 6 maelle commonmetar
#> 7 r-lib credentials
#> 8 EMODnet emodnet.wfs
#> 9 frictionlessdata frictionless-r
#> 10 r-lib gert
#> 11 ropensci-org gitcellar
#> 12 ropensci-review-tools goodpractice
#> 13 ropensci-review-tools pkgcheck
#> 14 ropensci-review-tools pkgmatch
#> 15 ropensci-org pkgreviewr
#> 16 ropensci-review-tools pkgstats
#> 17 <NA>
#> 18 ropensci-review-tools repometrics
#> 19 ropensci-review-tools roreviewapi
#> 20 ropensci-org rotemplate
#> 21 Permian-Global-Research rsi
#> 22 ropensci-training saperlipopette
#> 23 r-lib sodium
#> 24 YuLab-SMU treeio
#> 25 wfrierson wmm
#> 26 ropensci agroclimatico
#> 27 ropensci allcontributors
#> 28 ropensci allodb
#> 29 ropensci antanym
#> 30 ropensci antiword
#> 31 ropensci aorsf
#> 32 ropensci arkdb
#> 33 ropensci aRxiv
#> 34 ropensci av
#> 35 ropensci awardFindR
#> 36 ropensci babette
#> 37 ropensci baRcodeR
#> 38 ropensci baRulho
#> 39 ropensci BaseSet
#> 40 ropensci beastier
#> 41 ropensci beautier
#> 42 ropensci bib2df
#> 43 ropensci bibtex
#> 44 ropensci bikedata
#> 45 ropensci binman
#> 46 ropensci biomartr
#> 47 ropensci bold
#> 48 ropensci bowerbird
#> 49 ropensci brranching
#> 50 ropensci butterfly
#> 51 ropensci c14bazAAR
#> 52 ropensci c3dr
#> 53 ropensci camsRad
#> 54 ropensci canaper
#> 55 ropensci cde
#> 56 ropensci censo2017
#> 57 ropensci cffr
#> 58 ropensci charlatan
#> 59 ropensci chirps
#> 60 ropensci chlorpromazineR
#> 61 ropensci chopin
#> 62 ropensci chromer
#> 63 ropensci circle
#> 64 ropensci citecorp
#> 65 ropensci ckanr
#> 66 ropensci cld2
#> 67 ropensci cld3
#> 68 ropensci codemetar
#> 69 ropensci coder
#> 70 ropensci colocr
#> 71 ropensci comtradr
#> 72 ropensci concstats
#> 73 ropensci CoordinateCleaner
#> 74 ropensci CRediTas
#> 75 ropensci cRegulome
#> 76 ropensci crul
#> 77 ropensci cyphr
#> 78 ropensci daiquiri
#> 79 ropensci dataaimsr
#> 80 ropensci datapack
#> 81 ropensci DataPackageR
#> 82 ropensci DataSpaceR
#> 83 ropensci dataspice
#> 84 ropensci datefixR
#> 85 ropensci dbparser
#> 86 ropensci dendroNetwork
#> 87 ropensci dittodb
#> 88 ropensci DoOR.data
#> 89 ropensci DoOR.functions
#> 90 ropensci drake
#> 91 ropensci dwctaxon
#> 92 ropensci dynamite
#> 93 ropensci EDIutils
#> 94 ropensci eDNAjoint
#> 95 ropensci eia
#> 96 ropensci elastic
#> 97 ropensci EML
#> 98 ropensci emld
#> 99 ropensci EndoMineR
#> 100 ropensci epair
#> 101 ropensci eph
#> 102 ropensci epubr
#> 103 ropensci essurvey
#> 104 ropensci europepmc
#> 105 ropensci excluder
#> 106 ropensci exoplanets
#> 107 ropensci ezknitr
#> 108 ropensci fastMatMR
#> 109 ropensci FedData
#> 110 ropensci fellingdater
#> 111 ropensci fingertipsR
#> 112 ropensci fireexposuR
#> 113 ropensci fluidsynth
#> 114 ropensci forcis
#> 115 ropensci gbifdb
#> 116 ropensci gendercoder
#> 117 ropensci geojson
#> 118 ropensci geojsonio
#> 119 ropensci geonames
#> 120 ropensci geotargets
#> 121 ropensci getCRUCLdata
#> 122 ropensci ghql
#> 123 ropensci gigs
#> 124 ropensci gistr
#> 125 ropensci git2r
#> 126 ropensci git2rdata
#> 127 ropensci gitignore
#> 128 ropensci gittargets
#> 129 ropensci GLMMcosinor
#> 130 ropensci googleLanguageR
#> 131 ropensci grainchanger
#> 132 ropensci graphql
#> 133 ropensci GSODR
#> 134 ropensci gtexr
#> 135 ropensci gutenbergr
#> 136 ropensci handlr
#> 137 ropensci hddtools
#> 138 ropensci helminthR
#> 139 ropensci historydata
#> 140 ropensci hoardr
#> 141 ropensci hunspell
#> 142 ropensci hydroscoper
#> 143 ropensci iheatmapr
#> 144 ropensci ijtiff
#> 145 ropensci internetarchive
#> 146 ropensci jagstargets
#> 147 ropensci jenkins
#> 148 ropensci jqr
#> 149 ropensci jsonld
#> 150 ropensci jsonvalidate
#> 151 ropensci jstor
#> 152 ropensci karel
#> 153 ropensci katex
#> 154 ropensci landscapetools
#> 155 ropensci lightr
#> 156 ropensci lingtypology
#> 157 ropensci magick
#> 158 ropensci mapmetadata
#> 159 ropensci mapscanner
#> 160 ropensci mauricer
#> 161 ropensci mbquartR
#> 162 ropensci mcbette
#> 163 ropensci mctq
#> 164 ropensci medrxivr
#> 165 ropensci melt
#> 166 ropensci MODIStsp
#> 167 ropensci mregions2
#> 168 ropensci MtreeRing
#> 169 ropensci naijR
#> 170 ropensci nasapower
#> 171 ropensci neotoma
#> 172 ropensci NLMR
#> 173 ropensci nlrx
#> 174 ropensci nodbi
#> 175 ropensci nomisr
#> 176 ropensci npi
#> 177 ropensci nuts
#> 178 ropensci oai
#> 179 ropensci occCite
#> 180 ropensci ohun
#> 181 ropensci onekp
#> 182 ropensci openalexR
#> 183 ropensci opencage
#> 184 ropensci opencv
#> 185 ropensci opentripplanner
#> 186 ropensci osfr
#> 187 ropensci osmapiR
#> 188 ropensci osmdata
#> 189 ropensci osmextract
#> 190 ropensci osmplotr
#> 191 ropensci outcomerate
#> 192 ropensci paleobioDB
#> 193 ropensci pangaear
#> 194 ropensci pangoling
#> 195 ropensci parzer
#> 196 ropensci patentsview
#> 197 ropensci pathviewr
#> 198 ropensci pdftools
#> 199 ropensci phonfieldwork
#> 200 ropensci photosearcher
#> 201 ropensci phruta
#> 202 ropensci phylocomr
#> 203 ropensci phylogram
#> 204 ropensci phylotaR
#> 205 ropensci piggyback
#> 206 ropensci pixelclasser
#> 207 ropensci plater
#> 208 ropensci popler
#> 209 ropensci PostcodesioR
#> 210 ropensci postdoc
#> 211 ropensci predictNMB
#> 212 ropensci prism
#> 213 ropensci prismjs
#> 214 ropensci qpdf
#> 215 ropensci quadkeyr
#> 216 ropensci QuadratiK
#> 217 ropensci qualR
#> 218 ropensci qualtRics
#> 219 ropensci ramlegacy
#> 220 ropensci rangr
#> 221 ropensci rb3
#> 222 ropensci rcites
#> 223 ropensci rcrossref
#> 224 ropensci rdatacite
#> 225 ropensci rdataretriever
#> 226 ropensci rdflib
#> 227 ropensci rdhs
#> 228 ropensci rdryad
#> 229 ropensci readODS
#> 230 ropensci rebird
#> 231 ropensci RefManageR
#> 232 ropensci refsplitr
#> 233 ropensci ReLTER
#> 234 ropensci rentrez
#> 235 ropensci rerddap
#> 236 ropensci restez
#> 237 ropensci rfema
#> 238 ropensci rfishbase
#> 239 ropensci rfisheries
#> 240 ropensci rgbif
#> 241 ropensci rglobi
#> 242 ropensci rgnparser
#> 243 ropensci rgpdd
#> 244 ropensci riem
#> 245 ropensci rinat
#> 246 ropensci ritis
#> 247 ropensci rix
#> 248 ropensci rmangal
#> 249 ropensci rnassqs
#> 250 ropensci rnaturalearth
#> 251 ropensci rnaturalearthdata
#> 252 ropensci rnaturalearthhires
#> 253 ropensci RNeXML
#> 254 ropensci roadoi
#> 255 ropensci robotstxt
#> 256 ropensci rOPTRAM
#> 257 ropensci rotl
#> 258 ropensci rperseus
#> 259 ropensci Rpolyhedra
#> 260 ropensci rppo
#> 261 ropensci rredlist
#> 262 ropensci rrricanes
#> 263 ropensci rrricanesdata
#> 264 ropensci rsat
#> 265 ropensci RSelenium
#> 266 ropensci rsnps
#> 267 ropensci rsvg
#> 268 ropensci rtika
#> 269 ropensci ruODK
#> 270 ropensci rusda
#> 271 ropensci rvertnet
#> 272 ropensci rzmq
#> 273 ropensci skimr
#> 274 ropensci skynet
#> 275 ropensci slopes
#> 276 ropensci smapr
#> 277 ropensci sofa
#> 278 ropensci spatsoc
#> 279 ropensci spelling
#> 280 ropensci spiro
#> 281 ropensci spocc
#> 282 ropensci ssh
#> 283 ropensci stantargets
#> 284 ropensci stats19
#> 285 ropensci stplanr
#> 286 ropensci suppdata
#> 287 ropensci tabulapdf
#> 288 ropensci tacmagic
#> 289 ropensci tarchetypes
#> 290 ropensci targets
#> 291 ropensci taxa
#> 292 ropensci taxadb
#> 293 ropensci taxize
#> 294 ropensci taxizedb
#> 295 ropensci taxlist
#> 296 ropensci terrainr
#> 297 ropensci tesseract
#> 298 ropensci textreuse
#> 299 ropensci tic
#> 300 ropensci tidyhydat
#> 301 ropensci tidync
#> 302 ropensci tidypmc
#> 303 ropensci tidyqpcr
#> 304 ropensci tiler
#> 305 ropensci tinkr
#> 306 ropensci tokenizers
#> 307 ropensci tracerer
#> 308 ropensci tradestatistics
#> 309 ropensci traits
#> 310 ropensci treebase
#> 311 ropensci treedata.table
#> 312 ropensci treestartr
#> 313 ropensci tsbox
#> 314 ropensci UCSCXenaTools
#> 315 ropensci unifir
#> 316 ropensci universe
#> 317 ropensci unrtf
#> 318 ropensci USAboundaries
#> 319 ropensci USAboundariesData
#> 320 ropensci vcr
#> 321 ropensci virtuoso
#> 322 ropensci visdat
#> 323 ropensci wateRinfo
#> 324 ropensci waywiser
#> 325 ropensci wdman
#> 326 ropensci weathercan
#> 327 ropensci weatherOz
#> 328 ropensci webchem
#> 329 ropensci webmockr
#> 330 ropensci wikitaxa
#> 331 ropensci workloopR
#> 332 ropensci worrms
#> 333 ropensci writexl
#> 334 ropensci xslt
#> 335 ropensci yfR
pkgs(which = "all", return = "all")
#> name
#> 1 assertr
#> 2 auk
#> 3 autotest
#> 4 babeldown
#> 5 babelquarto
#> 6 commonmark
#> 7 commonmetar
#> 8 credentials
#> 9 emodnet.wfs
#> 10 frictionless
#> 11 gert
#> 12 gitcellar
#> 13 goodpractice
#> 14 pkgcheck
#> 15 pkgmatch
#> 16 pkgreviewr
#> 17 pkgstats
#> 18 promoutils
#> 19 repometrics
#> 20 roblog
#> 21 roreviewapi
#> 22 rotemplate
#> 23 rsi
#> 24 saperlipopette
#> 25 sodium
#> 26 srr
#> 27 treeio
#> 28 wmm
#> 29 agroclimatico
#> 30 allcontributors
#> 31 allodb
#> 32 antanym
#> 33 antiword
#> 34 aorsf
#> 35 arkdb
#> 36 aRxiv
#> 37 av
#> 38 awardFindR
#> 39 babette
#> 40 baRcodeR
#> 41 baRulho
#> 42 BaseSet
#> 43 beastier
#> 44 beautier
#> 45 bib2df
#> 46 bibtex
#> 47 bikedata
#> 48 binman
#> 49 biomartr
#> 50 birdsize
#> 51 bold
#> 52 bowerbird
#> 53 brranching
#> 54 butterfly
#> 55 c14bazAAR
#> 56 c3dr
#> 57 camsRad
#> 58 canaper
#> 59 cde
#> 60 censo2017
#> 61 cffr
#> 62 charlatan
#> 63 chirps
#> 64 chlorpromazineR
#> 65 chopin
#> 66 chromer
#> 67 circle
#> 68 citecorp
#> 69 ckanr
#> 70 cld2
#> 71 cld3
#> 72 codemetar
#> 73 coder
#> 74 colocr
#> 75 comtradr
#> 76 concstats
#> 77 CoordinateCleaner
#> 78 CRediTas
#> 79 cRegulome
#> 80 crul
#> 81 cyphr
#> 82 daiquiri
#> 83 dataaimsr
#> 84 datapack
#> 85 DataPackageR
#> 86 DataSpaceR
#> 87 dataspice
#> 88 datefixR
#> 89 dbparser
#> 90 dendroNetwork
#> 91 dittodb
#> 92 DoOR.data
#> 93 DoOR.functions
#> 94 drake
#> 95 dwctaxon
#> 96 dynamite
#> 97 EDIutils
#> 98 eDNAjoint
#> 99 eia
#> 100 elastic
#> 101 EML
#> 102 emld
#> 103 EndoMineR
#> 104 epair
#> 105 eph
#> 106 epubr
#> 107 essurvey
#> 108 europepmc
#> 109 excluder
#> 110 exoplanets
#> 111 ezknitr
#> 112 fastMatMR
#> 113 FedData
#> 114 fellingdater
#> 115 fingertipsR
#> 116 fireexposuR
#> 117 fluidsynth
#> 118 forcis
#> 119 gbifdb
#> 120 gendercoder
#> 121 geojson
#> 122 geojsonio
#> 123 geonames
#> 124 geotargets
#> 125 getCRUCLdata
#> 126 ghql
#> 127 gigs
#> 128 gistr
#> 129 git2r
#> 130 git2rdata
#> 131 gitignore
#> 132 gittargets
#> 133 GLMMcosinor
#> 134 googleLanguageR
#> 135 grainchanger
#> 136 graphql
#> 137 GSODR
#> 138 gtexr
#> 139 gutenbergr
#> 140 handlr
#> 141 hddtools
#> 142 helminthR
#> 143 historydata
#> 144 hoardr
#> 145 hunspell
#> 146 hydroscoper
#> 147 iheatmapr
#> 148 ijtiff
#> 149 internetarchive
#> 150 jagstargets
#> 151 jenkins
#> 152 jqr
#> 153 jsonld
#> 154 jsonvalidate
#> 155 jstor
#> 156 karel
#> 157 katex
#> 158 landscapetools
#> 159 lightr
#> 160 lingtypology
#> 161 magick
#> 162 mapmetadata
#> 163 mapscanner
#> 164 mauricer
#> 165 mbquartR
#> 166 mcbette
#> 167 mctq
#> 168 medrxivr
#> 169 melt
#> 170 MODIStsp
#> 171 mregions2
#> 172 MtreeRing
#> 173 naijR
#> 174 nasapower
#> 175 neotoma
#> 176 NLMR
#> 177 nlrx
#> 178 nodbi
#> 179 nomisr
#> 180 npi
#> 181 nuts
#> 182 oai
#> 183 occCite
#> 184 ohun
#> 185 onekp
#> 186 openalexR
#> 187 opencage
#> 188 opencv
#> 189 opentripplanner
#> 190 osfr
#> 191 osmapiR
#> 192 osmdata
#> 193 osmextract
#> 194 osmplotr
#> 195 outcomerate
#> 196 paleobioDB
#> 197 pangaear
#> 198 pangoling
#> 199 parzer
#> 200 patentsview
#> 201 pathviewr
#> 202 pdftools
#> 203 phonfieldwork
#> 204 photosearcher
#> 205 phruta
#> 206 phylocomr
#> 207 phylogram
#> 208 phylotaR
#> 209 piggyback
#> 210 pixelclasser
#> 211 plater
#> 212 popler
#> 213 PostcodesioR
#> 214 postdoc
#> 215 predictNMB
#> 216 prism
#> 217 prismjs
#> 218 qpdf
#> 219 quadkeyr
#> 220 QuadratiK
#> 221 qualR
#> 222 qualtRics
#> 223 ramlegacy
#> 224 rangr
#> 225 rb3
#> 226 rcites
#> 227 rcrossref
#> 228 rdatacite
#> 229 rdataretriever
#> 230 rdflib
#> 231 rdhs
#> 232 rdryad
#> 233 readODS
#> 234 rebird
#> 235 RefManageR
#> 236 refsplitr
#> 237 ReLTER
#> 238 rentrez
#> 239 rerddap
#> 240 restez
#> 241 rfema
#> 242 rfishbase
#> 243 rfisheries
#> 244 rgbif
#> 245 rglobi
#> 246 rgnparser
#> 247 rgpdd
#> 248 riem
#> 249 rinat
#> 250 ritis
#> 251 rix
#> 252 rmangal
#> 253 rnassqs
#> 254 rnaturalearth
#> 255 rnaturalearthdata
#> 256 rnaturalearthhires
#> 257 RNeXML
#> 258 roadoi
#> 259 robotstxt
#> 260 rOPTRAM
#> 261 rotl
#> 262 rperseus
#> 263 Rpolyhedra
#> 264 rppo
#> 265 rredlist
#> 266 rrricanes
#> 267 rrricanesdata
#> 268 rsat
#> 269 RSelenium
#> 270 rsnps
#> 271 rsvg
#> 272 rtika
#> 273 ruODK
#> 274 rusda
#> 275 rvertnet
#> 276 rzmq
#> 277 skimr
#> 278 skynet
#> 279 slopes
#> 280 smapr
#> 281 sofa
#> 282 spatsoc
#> 283 spelling
#> 284 spiro
#> 285 spocc
#> 286 ssh
#> 287 stantargets
#> 288 stats19
#> 289 stplanr
#> 290 suppdata
#> 291 SymbiotaR2
#> 292 tabulapdf
#> 293 tacmagic
#> 294 tarchetypes
#> 295 targets
#> 296 taxa
#> 297 taxadb
#> 298 taxize
#> 299 taxizedb
#> 300 taxlist
#> 301 terrainr
#> 302 tesseract
#> 303 textreuse
#> 304 tic
#> 305 tidyhydat
#> 306 tidync
#> 307 tidypmc
#> 308 tidyqpcr
#> 309 tiler
#> 310 tinkr
#> 311 tokenizers
#> 312 tracerer
#> 313 tradestatistics
#> 314 traits
#> 315 treebase
#> 316 treedata.table
#> 317 treestartr
#> 318 tsbox
#> 319 UCSCXenaTools
#> 320 unifir
#> 321 universe
#> 322 unrtf
#> 323 USAboundaries
#> 324 USAboundariesData
#> 325 vcr
#> 326 virtuoso
#> 327 visdat
#> 328 wateRinfo
#> 329 waywiser
#> 330 wdman
#> 331 weathercan
#> 332 weatherOz
#> 333 webchem
#> 334 webmockr
#> 335 wikitaxa
#> 336 workloopR
#> 337 worrms
#> 338 writexl
#> 339 xslt
#> 340 yfR
#> 341 aeolus
#> 342 deposits
#> 343 icepalace
#> 344 qcoder
#> 345 quartificate
#> 346 r2readthedocs
#> 347 tif
#> description
#> 1 Assertive Programming for R Analysis Pipelines
#> 2 eBird Data Extraction and Processing in R
#> 3 Automatic Package Testing
#> 4 Helpers for Automatic Translation of Markdown-based Content
#> 5 Renders a Multilingual Quarto Book
#> 6 High Performance CommonMark and Github Markdown Rendering in R
#> 7 Wraps Commonmeta For rOpenSci Blog's Needs
#> 8 Tools for Managing SSH and Git Credentials
#> 9 Access 'EMODnet' Web Feature Service data through R
#> 10 Read and Write Frictionless Data Packages
#> 11 Simple Git Client for R
#> 12 Helps Download Archives of GitHub Repositories
#> 13 Advice on R Package Building
#> 14 rOpenSci Package Checks
#> 15 Find R Packages Matching Either Descriptions or Other R Packages
#> 16 rOpenSci package review project template
#> 17 Metrics of R Packages
#> 18 Utilities for Promoting rOpenSci on Twitter
#> 19 Metrics for Your Code Repository
#> 20 rOpenSci's blog guidance
#> 21 Plumber API to report package structure and function
#> 22 pkgdown template and utilities for rOpenSci docs
#> 23 Efficiently Retrieve and Process Satellite Imagery
#> 24 Create Example Git Messes
#> 25 A Modern and Easy-to-Use Crypto Library
#> 26 'rOpenSci' Review Roclets
#> 27 Base Classes and Functions for Phylogenetic Tree Input and Output
#> 28 World Magnetic Model
#> 29 Índices y Estadísticos Climáticos e Hidrológicos
#> 30 Acknowledge all Contributors to a Project
#> 31 Tree Biomass Estimation at Extra-Tropical Forest Plots
#> 32 Antarctic Geographic Place Names
#> 33 Extract Text from Microsoft Word Documents
#> 34 Accelerated Oblique Random Forests
#> 35 Archive and Unarchive Databases Using Flat Files
#> 36 Interface to the arXiv API
#> 37 Working with Audio and Video in R
#> 38 awardFindR
#> 39 Control 'BEAST2'
#> 40 Label Creation for Tracking and Collecting Data from\n Biological Samples
#> 41 Quantifying (Animal) Sound Degradation
#> 42 Working with Sets the Tidy Way
#> 43 Call 'BEAST2'
#> 44 'BEAUti' from R
#> 45 Parse a BibTeX File to a Data Frame
#> 46 Bibtex Parser
#> 47 Download and Aggregate Data from Public Hire Bicycle Systems
#> 48 A Binary Download Manager
#> 49 Genomic Data Retrieval
#> 50 Estimate Avian Body Size Distributions
#> 51 Interface to Bold Systems API
#> 52 Keep a Collection of Sparkly Data Resources
#> 53 Fetch 'Phylogenies' from Many Sources
#> 54 Verification for Continually Updating Time Series Data
#> 55 Download and Prepare C14 Dates from Different Source Databases
#> 56 Read and Write C3D Motion Capture Files
#> 57 Client for CAMS Radiation Service
#> 58 Categorical Analysis of Neo- And Paleo-Endemism
#> 59 Download Data from the Catchment Data Explorer Website
#> 60 Base de Datos de Facil Acceso del Censo 2017 de Chile\n (2017 Chilean Census Easy Access Database)
#> 61 Generate Citation File Format ('cff') Metadata for R Packages
#> 62 Make Fake Data
#> 63 API Client for CHIRPS and CHIRTS
#> 64 Convert Antipsychotic Doses to Chlorpromazine Equivalents
#> 65 Computation of Spatial Data by Hierarchical and Objective Partitioning of Inputs for Parallel Processing
#> 66 Interface to Chromosome Counts Database API
#> 67 R Client Package for Circle CI
#> 68 Client for the Open Citations Corpus
#> 69 Client for the Comprehensive Knowledge Archive Network ('CKAN') API
#> 70 Google's Compact Language Detector 2
#> 71 Google's Compact Language Detector 3
#> 72 Generate 'CodeMeta' Metadata for R Packages
#> 73 Deterministic Categorization of Items Based on External Code Data
#> 74 Conduct Co-Localization Analysis of Fluorescence Microscopy Images
#> 75 Interface with the United Nations Comtrade API
#> 76 Market Structure, Concentration and Inequality Measures
#> 77 Automated Cleaning of Occurrence Records from Biological\n Collections
#> 78 Generate CRediT Author Statements
#> 79 Obtain and Visualize Regulome-Gene Expression Correlations in Cancer
#> 80 HTTP Client
#> 81 High Level Encryption Wrappers
#> 82 Data Quality Reporting for Temporal Datasets
#> 83 AIMS Data Platform API Client
#> 84 A Flexible Container to Transport and Manipulate Data and Associated\n Resources
#> 85 Construct Reproducible Analytic Data Sets as R Packages
#> 86 Interface to 'the CAVD DataSpace'
#> 87 Create Lightweight Schema.org Descriptions of Data
#> 88 Standardize Dates in Different Formats or with Missing Data
#> 89 Drugs Databases Parser
#> 90 Create Networks of Dendrochronological Series using Pairwise Similarity
#> 91 A Test Environment for Database Requests
#> 92 A DoOR to the Complete Olfactome
#> 93 A DoOR to the Complete Olfactome
#> 94 A Pipeline Toolkit for Reproducible Computation at Scale
#> 95 Edit and Validate Darwin Core Taxon Data
#> 96 Bayesian Modeling and Causal Inference for Multivariate\n Longitudinal Data
#> 97 An API Client for the Environmental Data Initiative Repository
#> 98 Joint Modeling of Traditional and Environmental DNA Survey Data in a Bayesian Framework
#> 99 API Wrapper for U.S. Energy Information Administration ('EIA') Open Data
#> 100 General Purpose Interface to 'Elasticsearch'
#> 101 Read and Write Ecological Metadata Language Files
#> 102 Ecological Metadata as Linked Data
#> 103 Functions to mine endoscopic and associated pathology datasets
#> 104 EPA Data Helper for R
#> 105 Argentina's Permanent Household Survey Data and Manipulation Utilities
#> 106 Read EPUB File Metadata and Text
#> 107 Download Data from the European Social Survey on the Fly
#> 108 R Interface to the Europe PubMed Central RESTful Web Service
#> 109 Checks for Exclusion Criteria in Online Data
#> 110 Access NASA's Exoplanet Archive Data
#> 111 Avoid the Typical Working Directory Pain When Using 'knitr'
#> 112 High-Performance Matrix Market File Operations
#> 113 Download Geospatial Data Available from\n Several Federated Data Sources
#> 114 Estimate, report and combine felling dates of historical tree-ring \n series
#> 115 Fingertips Data for Public Health
#> 116 Compute and Visualize Wildfire Exposure
#> 117 Read and Play Digital Music (MIDI)
#> 118 Handle the FORCIS Foraminifera Database
#> 119 High Performance Interface to 'GBIF'
#> 120 Recodes Sex/Gender Descriptions into a Standard Set
#> 121 Classes for 'GeoJSON'
#> 122 Convert Data from and to 'GeoJSON' or 'TopoJSON'
#> 123 Interface to the "Geonames" Spatial Query Web Service
#> 124 'targets' Extensions for Geographic Spatial Formats
#> 125 'CRU' 'CL' v. 2.0 Climatology Client
#> 126 General Purpose 'GraphQL' Client
#> 127 Assess Fetal, Newborn, and Child Growth with International Standards
#> 128 Work with 'GitHub' 'Gists'
#> 129 Provides Access to Git Repositories
#> 130 Store and Retrieve Data.frames in a Git Repository
#> 131 Create Useful .gitignore Files for your Project
#> 132 Data Version Control for the Targets Package
#> 133 Fit a Cosinor Model Using a Generalized Mixed Modeling Framework
#> 134 Call Google's 'Natural Language' API, 'Cloud Translation' API, \n 'Cloud Speech' API and 'Cloud Text-to-Speech' API
#> 135 Moving-Window and Direct Data Aggregation
#> 136 A GraphQL Query Parser
#> 137 Global Surface Summary of the Day ('GSOD') Weather Data Client
#> 138 Query the GTEx Portal API
#> 139 Download and Process Public Domain Works from Project Gutenberg
#> 140 Convert Among Citation Formats
#> 141 Hydrological Data Discovery Tools
#> 142 Access London Natural History Museum Host-Helminth Record Database
#> 143 Datasets for Historians
#> 144 Manage Cached Files
#> 145 High-Performance Stemmer, Tokenizer, and Spell Checker
#> 146 Interface to the Greek National Data Bank for Hydrometeorological Information
#> 147 Interactive, Complex Heatmaps
#> 148 Comprehensive TIFF I/O with Full Support for 'ImageJ' TIFF Files
#> 149 An API Client for the Internet Archive
#> 150 Targets for JAGS Pipelines
#> 151 Simple Jenkins Client for R
#> 152 Client for 'jq', a 'JSON' Processor
#> 153 JSON for Linking Data
#> 154 Validate 'JSON' Schema
#> 155 Read Data from JSTOR/DfR
#> 156 Learning programming with Karel the robot
#> 157 Rendering Math to HTML, 'MathML', or R-Documentation Format
#> 158 Landscape Utility Toolbox
#> 159 Read Spectrometric Data and Metadata
#> 160 Linguistic Typology and Mapping
#> 161 Advanced Graphics and Image-Processing in R
#> 162 Map health metadata onto predefined research domains
#> 163 Print Maps, Draw on Them, Scan Them Back in
#> 164 Work with 'BEAST2' Packages
#> 165 Finding Manitoba Quarter Sections
#> 166 Model Comparison Using 'babette'
#> 167 Munich ChronoType Questionnaire Tools
#> 168 Access and Search MedRxiv and BioRxiv Preprint Data
#> 169 Multiple Empirical Likelihood Tests
#> 170 Find, Download and Process MODIS Land Products\n Data
#> 171 Gazetteer & Data Products
#> 172 A Shiny Application for Automatic Measurements of Tree-Ring Widths on Digital Images
#> 173 Operations to Ease Data Analyses Specific to Nigeria
#> 174 NASA POWER API Client
#> 175 Access to the Neotoma Paleoecological Database Through R
#> 176 Simulating Neutral Landscape Models
#> 177 Setup, Run and Analyze 'NetLogo' Model Simulations from 'R' via 'XML'
#> 178 'NoSQL' Database Connector
#> 179 Access 'Nomis' UK Labour Market Data
#> 180 Access the U.S. National Provider Identifier Registry API
#> 181 Convert European Regional Data
#> 182 General Purpose 'Oai-PMH' Services Client
#> 183 Querying and Managing Large Biodiversity Occurrence Datasets
#> 184 Optimizing Acoustic Signal Detection
#> 185 Retrieve Data from the 1000 Plants Initiative (1KP)
#> 186 Getting Bibliographic Records from 'OpenAlex' Database Using 'DSL'\n API
#> 187 Geocode with the OpenCage API
#> 188 Bindings to 'OpenCV' Computer Vision Library
#> 189 Setup and connect to 'OpenTripPlanner'
#> 190 Interface to the 'Open Science Framework' ('OSF')
#> 191 'OpenStreetMap' API
#> 192 Import 'OpenStreetMap' Data as Simple Features or Spatial Objects
#> 193 Download and Import Open Street Map Data Extracts
#> 194 Bespoke Images of 'OpenStreetMap' Data
#> 195 AAPOR Survey Outcome Rates
#> 196 Download and Process Data from the Paleobiology Database
#> 197 Client for the 'Pangaea' Database
#> 198 Access to Large Language Model Predictions
#> 199 Parse Messy Geographic Coordinates
#> 200 An R Client to the 'PatentsView' API
#> 201 Wrangle, Analyze, and Visualize Animal Movement Data
#> 202 Text Extraction, Rendering and Converting of PDF Documents
#> 203 Linguistic Phonetic Fieldwork Tools
#> 204 Photo Searcher
#> 205 Phylogenetic Reconstruction and Time-dating
#> 206 Interface to 'Phylocom'
#> 207 Dendrograms for Evolutionary Analysis
#> 208 Automated Phylogenetic Sequence Cluster Identification from\n 'GenBank'
#> 209 Managing Larger Data on a GitHub Repository
#> 210 Classifies Image Pixels by Colour
#> 211 Read, Tidy, and Display Data from Microtiter Plates
#> 212 Popler R Package
#> 213 API Wrapper Around 'Postcodes.io'
#> 214 Minimal and Uncluttered Package Documentation
#> 215 Evaluate Clinical Prediction Models by Net Monetary Benefit
#> 216 Access Data from the Oregon State Prism Climate Project
#> 217 Server-Side Syntax Highlighting
#> 218 Split, Combine and Compress PDF Files
#> 219 Generate Raster Images from QuadKey-Identified Datasets
#> 220 Collection of Methods Constructed using Kernel-Based Quadratic Distances
#> 221 An R package to download São Paulo and Rio de Janeiro air pollution data
#> 222 Download 'Qualtrics' Survey Data
#> 223 Download and Read RAM Legacy Stock Assessment Database
#> 224 Mechanistic Simulation of Species Range Dynamics
#> 225 Download and Parse Public Data Released by B3 Exchange
#> 226 R Interface to the Species+ Database
#> 227 Client for Various 'CrossRef' 'APIs'
#> 228 Client for the 'DataCite' API
#> 229 R Interface to the Data Retriever
#> 230 Tools to Manipulate and Query Semantic Data
#> 231 API Client and Dataset Management for the Demographic and Health Survey (DHS) Data
#> 232 Access for Dryad Web Services
#> 233 Read and Write ODS Files
#> 234 R Client for the eBird Database of Bird Observations
#> 235 Straightforward 'BibTeX' and 'BibLaTeX' Bibliography Management
#> 236 author name disambiguation, author georeferencing, and mapping of \n coauthorship networks with 'Web of Science' data
#> 237 An Interface for the eLTER Community
#> 238 'Entrez' in R
#> 239 General Purpose Client for 'ERDDAP™' Servers
#> 240 Create and Query a Local Copy of 'GenBank' in R
#> 241 Access the openFEMA API
#> 242 R Interface to 'FishBase'
#> 243 Programmatic Interface to the 'openfisheries.org' API
#> 244 Interface to the Global Biodiversity Information Facility API
#> 245 Interface to Global Biotic Interactions
#> 246 Parse Scientific Names
#> 247 R Interface to the Global Population Dynamics Database
#> 248 Accesses Weather Data from the Iowa Environment Mesonet
#> 249 Access 'iNaturalist' Data Through APIs
#> 250 Integrated Taxonomic Information System Client
#> 251 Reproducible Data Science Environments with 'Nix'
#> 252 'Mangal' Client
#> 253 Access Data from the NASS 'Quick Stats' API
#> 254 World Map Data from Natural Earth
#> 255 World Vector Map Data from Natural Earth Used in 'rnaturalearth'
#> 256 High Resolution World Vector Map Data from Natural Earth used in\n rnaturalearth
#> 257 Semantically Rich I/O for the 'NeXML' Format
#> 258 Find Free Versions of Scholarly Publications via Unpaywall
#> 259 A 'robots.txt' Parser and 'Webbot'/'Spider'/'Crawler' Permissions Checker
#> 260 Derive Soil Moisture Using the OPTRAM Algorithm
#> 261 Interface to the 'Open Tree of Life' API
#> 262 Get Texts from the Perseus Digital Library
#> 263 Polyhedra Database
#> 264 Access the Global Plant Phenology Data Portal
#> 265 'IUCN' Red List Client
#> 266 Web Scraper for Atlantic and East Pacific Hurricanes and Tropical Storms
#> 267 Data for Atlantic and east Pacific tropical cyclones since 1998
#> 268 Dealing with Multiplatform Satellite Images
#> 269 R Bindings for 'Selenium WebDriver'
#> 270 Get 'SNP' ('Single-Nucleotide' 'Polymorphism') Data on the Web
#> 271 Render SVG Images into PDF, PNG, (Encapsulated) PostScript, or Bitmap Arrays
#> 272 R Interface to 'Apache Tika'
#> 273 An R Client for the ODK Central API
#> 274 Interface to USDA Databases
#> 275 Search 'Vertnet', a 'Database' of Vertebrate Specimen Records
#> 276 R Bindings for 'ZeroMQ'
#> 277 Compact and Flexible Summaries of Data
#> 278 Generates Networks from BTS Data
#> 279 Calculate Slopes of Roads, Rivers and Trajectories
#> 280 Acquisition and Processing of NASA Soil Moisture Active-Passive (SMAP) Data
#> 281 Connector to 'CouchDB'
#> 282 Group Animal Relocation Data by Spatial and Temporal Relationship
#> 283 Tools for Spell Checking in R
#> 284 Manage Data from Cardiopulmonary Exercise Testing
#> 285 Interface to Species Occurrence Data Sources
#> 286 Secure Shell (SSH) Client for R
#> 287 Targets for Stan Workflows
#> 288 Work with Open Road Traffic Casualty Data from Great Britain
#> 289 Sustainable Transport Planning
#> 290 Downloading Supplementary Data from Published Manuscripts
#> 291 Downloading Data from Symbiota2 Portals into R
#> 292 Extract Tables from PDF Documents
#> 293 Positron Emission Tomography Time-Activity Curve Analysis
#> 294 Archetypes for Targets
#> 295 Dynamic Function-Oriented 'Make'-Like Declarative Pipelines
#> 296 Classes for Storing and Manipulating Taxonomic Data
#> 297 A High-Performance Local Taxonomic Database Interface
#> 298 Taxonomic Information from Around the Web
#> 299 Tools for Working with 'Taxonomic' Databases
#> 300 Handling Taxonomic Lists
#> 301 Landscape Visualizations in R and 'Unity'
#> 302 Open Source OCR Engine
#> 303 Detect Text Reuse and Document Similarity
#> 304 CI-Agnostic Workflow Definitions
#> 305 Extract and Tidy Canadian 'Hydrometric' Data
#> 306 A Tidy Approach to 'NetCDF' Data Exploration and Extraction
#> 307 Parse Full Text XML Documents from PubMed Central
#> 308 Quantitative PCR Analysis with the Tidyverse
#> 309 Create Geographic and Non-Geographic Map Tiles
#> 310 Cast '(R)Markdown' Files to 'XML' and Back Again
#> 311 Fast, Consistent Tokenization of Natural Language Text
#> 312 Tracer from R
#> 313 Open Trade Statistics API Wrapper and Utility Program
#> 314 Species Trait Data from Around the Web
#> 315 Discovery, Access and Manipulation of 'TreeBASE' Phylogenies
#> 316 Manipulation of Matched Phylogenies and Data using 'data.table'
#> 317 Generate Starting Trees For Combined Molecular, Morphological and Stratigraphic Data
#> 318 Class-Agnostic Time Series
#> 319 Download and Explore Datasets from UCSC Xena Data Hubs
#> 320 A Unifying API for Calling the 'Unity' '3D' Video Game Engine
#> 321 //r-universe.dev>
#> 322 Extract Text from Rich Text Format (RTF) Documents
#> 323 Historical and Contemporary Boundaries of the United States of America
#> 324 Datasets for the 'USAboundaries' package
#> 325 Record 'HTTP' Calls to Disk
#> 326 Interface to 'Virtuoso' using 'ODBC'
#> 327 Preliminary Visualisation of Data
#> 328 Download Time Series Data from Waterinfo.be
#> 329 Ergonomic Methods for Assessing Spatial Models
#> 330 'Webdriver'/'Selenium' Binary Manager
#> 331 Download Weather Data from Environment and Climate Change Canada
#> 332 An API Client for Australian Weather and Climate Data Resources
#> 333 Chemical Information from the Web
#> 334 Stubbing and Setting Expectations on 'HTTP' Requests
#> 335 Taxonomic Information from 'Wikipedia'
#> 336 Analysis of Work Loops and Other Data from Muscle Physiology Experiments
#> 337 World Register of Marine Species (WoRMS) Client
#> 338 Export Data Frames to Excel 'xlsx' Format
#> 339 Extensible Style-Sheet Language Transformations
#> 340 Downloads and Organizes Financial Data from Yahoo Finance
#> 341 Unleash Useful Linebreaks in Markdown Documents
#> 342 A universal client for depositing and accessing research data\n anywhere
#> 343 Snapshot Current Versions of CRAN-like Repositories
#> 344 Lightweight Qualitative Coding
#> 345 Transform Google Docs into Quarto Books
#> 346 Convert R Package Documentation to a 'readthedocs' Website
#> 347 Text Interchange Format
#> details
#> 1 Provides functionality to assert conditions that have to be met so that errors in data used in analysis pipelines can fail quickly. Similar to 'stopifnot()' but more powerful, friendly, and easier for use in pipelines.
#> 2 Extract and process bird sightings records from eBird (<http://ebird.org>), an online tool for recording bird observations. Public access to the full eBird database is via the eBird Basic Dataset (EBD; see <http://ebird.org/ebird/data/download> for access), a downloadable text file. This package is an interface to AWK for extracting data from the EBD based on taxonomic, spatial, or temporal filters, to produce a manageable file size that can be imported into R.
#> 3 Automatic testing of R packages via a simple YAML schema.
#> 4 Provide workflows and guidance for automatic translation of Markdown-based R content using DeepL API.
#> 5 Automate rendering and cross-linking of Quarto books following a prescribed structure.
#> 6 The CommonMark specification <https://github.github.com/gfm/> defines a rationalized version of markdown syntax. This package uses the 'cmark' reference implementation for converting markdown text into various formats including html, latex and groff man. In addition it exposes the markdown parse tree in xml format. Also includes opt-in support for GFM extensions including tables, autolinks, and strikethrough text.
#> 7 Uses the commonmeta Go library to generate random DOI strings.
#> 8 Setup and retrieve HTTPS and SSH credentials for use with 'git' and other services. For HTTPS remotes the package interfaces the 'git-credential' utility which 'git' uses to store HTTP usernames and passwords. For SSH remotes we provide convenient functions to find or generate appropriate SSH keys. The package both helps the user to setup a local git installation, and also provides a back-end for git/ssh client libraries to authenticate with existing user credentials.
#> 9 Access and interrogate 'EMODnet' (European Marine Observation and Data Network) Web Feature Service data through R.
#> 10 Read and write Frictionless Data Packages. A 'Data Package' (<https://specs.frictionlessdata.io/data-package/>) is a simple container format and standard to describe and package a collection of (tabular) data. It is typically used to publish FAIR (<https://www.go-fair.org/fair-principles/>) and open datasets.
#> 11 Simple git client for R based on 'libgit2' <https://libgit2.org> with support for SSH and HTTPS remotes. All functions in 'gert' use basic R data types (such as vectors and data-frames) for their arguments and return values. User credentials are shared with command line 'git' through the git-credential store and ssh keys stored on disk or ssh-agent.
#> 12 Provide functionality to download archives (backups) for all repositories in a GitHub organization (useful for backups!).
#> 13 Give advice about good practices when building R packages. Advice includes functions and syntax to avoid, package structure, code complexity, code formatting, etc.
#> 14 Check whether a package is ready for submission to rOpenSci's peer review system.
#> 15 Find R packages matching either descriptions or other R packages.
#> 16 Creates files and collects materials necessary to complete an rOpenSci package review. Review files are prepopulated with review package specific metadata. Review package source code is also cloned for local testing and inspection.
#> 17 Static code analyses for R packages using the external code-tagging libraries 'ctags' and 'gtags'. Static analyses enable packages to be analysed very quickly, generally a couple of seconds at most. The package also provides access to a database generating by applying the main function to the full 'CRAN' archive, enabling the statistical properties of any package to be compared with all other 'CRAN' packages.
#> 18 Utility functions for accessing GitHub and twitter data.
#> 19 Metrics for your code repository. Call one function to generate an interactive dashboard displaying the state of your code.
#> 20 It provides templates for roweb2 blogging and help for a GitHub forking workflow.
#> 21 Plumber API to report package structure and function.
#> 22 This is a private template for use by rOpenSci packages. Please don't use it for your own non-rOpenSci package.
#> 23 Downloads spatial data from spatiotemporal asset catalogs ('STAC'), computes standard spectral indices from the Awesome Spectral Indices project (Montero et al. (2023) <doi:10.1038/s41597-023-02096-0>) against raster data, and glues the outputs together into predictor bricks. Methods focus on interoperability with the broader spatial ecosystem; function arguments and outputs use classes from 'sf' and 'terra', and data downloading functions support complex 'CQL2' queries using 'rstac'.
#> 24 Holds functions creating Git messes, that users would then solve, to follow <https://ohshitgit.com/>.
#> 25 Bindings to 'libsodium' <https://doc.libsodium.org/>: a modern, easy-to-use software library for encryption, decryption, signatures, password hashing and more. Sodium uses curve25519, a state-of-the-art Diffie-Hellman function by Daniel Bernstein, which has become very popular after it was discovered that the NSA had backdoored Dual EC DRBG.
#> 26 Companion package to 'rOpenSci' statistical software review project.
#> 27 'treeio' is an R package to make it easier to import and store phylogenetic tree with associated data; and to link external data from different sources to phylogeny. It also supports exporting phylogenetic tree with heterogeneous associated data to a single tree file and can be served as a platform for merging tree with associated data and converting file formats.
#> 28 Calculate magnetic field at a given location and time according to the World Magnetic Model (WMM). Both the main field and secular variation components are returned. This functionality is useful for physicists and geophysicists who need orthogonal components from WMM. Currently, this package supports annualized time inputs between 2000 and 2025. If desired, users can specify which WMM version to use, e.g., the original WMM2015 release or the recent out-of-cycle WMM2015 release. Methods used to implement WMM, including the Gauss coefficients for each release, are described in the following publications: Chulliat et al (2020) <doi:10.25923/ytk1-yx35>, Chulliat et al (2019) <doi:10.25921/xhr3-0t19>, Chulliat et al (2015) <doi:10.7289/V5TB14V7>, Maus et al (2010) <https://www.ngdc.noaa.gov/geomag/WMM/data/WMMReports/WMM2010_Report.pdf>, McLean et al (2004) <https://www.ngdc.noaa.gov/geomag/WMM/data/WMMReports/TRWMM_2005.pdf>, and Macmillian et al (2000) <https://www.ngdc.noaa.gov/geomag/WMM/data/WMMReports/wmm2000.pdf>.
#> 29 Conjunto de funciones para calcular índices y estadísticos climáticos hidrológicos a partir de datos tidy. Incluye una función para graficar resultados georeferenciados y e información cartográfica.
#> 30 Acknowledge all contributors to a project via a single function call. The function appends to a 'README' or other specified file(s) a table with names of all individuals who contributed via code or repository issues. The package also includes several additional functions to extract and quantify contributions to any repository.
#> 31 Standardize and simplify the tree biomass estimation process across globally distributed extratropical forests.
#> 32 Antarctic geographic names from the Composite Gazetteer of Antarctica, and functions for working with those place names.
#> 33 Wraps the 'AntiWord' utility to extract text from Microsoft Word documents. The utility only supports the old 'doc' format, not the new xml based 'docx' format. Use the 'xml2' package to read the latter.
#> 34 Fit, interpret, and compute predictions with oblique random forests. Includes support for partial dependence, variable importance, passing customized functions for variable importance and identification of linear combinations of features. Methods for the oblique random survival forest are described in Jaeger et al., (2023) <DOI:10.1080/10618600.2023.2231048>.
#> 35 Flat text files provide a robust, compressible, and portable way to store tables from databases. This package provides convenient functions for exporting tables from relational database connections into compressed text files and streaming those text files back into a database without requiring the whole table to fit in working memory.
#> 36 An interface to the API for 'arXiv', a repository of electronic preprints for computer science, mathematics, physics, quantitative biology, quantitative finance, and statistics.
#> 37 Bindings to 'FFmpeg' <http://www.ffmpeg.org/> AV library for working with audio and video in R. Generates high quality video from images or R graphics with custom audio. Also offers high performance tools for reading raw audio, creating 'spectrograms', and converting between countless audio / video formats. This package interfaces directly to the C API and does not require any command line utilities.
#> 38 Queries a number of scientific awards databases. Collects relevant results based on keyword and date parameters, returns list of projects that fit those criteria as a data frame. Sources include: Arnold Ventures, Carnegie Corp, Federal RePORTER, Gates Foundation, MacArthur Foundation, Mellon Foundation, NEH, NIH, NSF, Open Philanthropy, Open Society Foundations, Rockefeller Foundation, Russell Sage Foundation, Robert Wood Johnson Foundation, Sloan Foundation, Social Science Research Council, John Templeton Foundation, and USASpending.gov.
#> 39 'BEAST2' (<https://www.beast2.org>) is a widely used Bayesian phylogenetic tool, that uses DNA/RNA/protein data and many model priors to create a posterior of jointly estimated phylogenies and parameters. 'BEAST2' is commonly accompanied by 'BEAUti 2', 'Tracer' and 'DensiTree'. 'babette' provides for an alternative workflow of using all these tools separately. This allows doing complex Bayesian phylogenetics easily and reproducibly from 'R'.
#> 40 Tools to generate unique identifier codes and printable barcoded labels for the management of biological samples. The creation of unique ID codes and printable PDF files can be initiated by standard commands, user prompts, or through a GUI addin for R Studio. Biologically informative codes can be included for hierarchically structured sampling designs.
#> 41 Intended to facilitate acoustic analysis of (animal) sound propagation experiments, which typically aim to quantify changes in signal structure when transmitted in a given habitat by broadcasting and re-recording animal sounds at increasing distances. The package offers a workflow with functions to prepare the data set for analysis as well as to calculate and visualize several degradation metrics, including blur ratio, signal-to-noise ratio, excess attenuation and envelope correlation among others (Dabelsteen et al 1993 <doi:10.1121/1.406682>).
#> 42 Implements a class and methods to work with sets, doing intersection, union, complementary sets, power sets, cartesian product and other set operations in a "tidy" way. These set operations are available for both classical sets and fuzzy sets. Import sets from several formats or from other several data structures.
#> 43 'BEAST2' (<https://www.beast2.org>) is a widely used Bayesian phylogenetic tool, that uses DNA/RNA/protein data and many model priors to create a posterior of jointly estimated phylogenies and parameters. 'BEAST2' is a command-line tool. This package provides a way to call 'BEAST2' from an 'R' function call.
#> 44 'BEAST2' (<https://www.beast2.org>) is a widely used Bayesian phylogenetic tool, that uses DNA/RNA/protein data and many model priors to create a posterior of jointly estimated phylogenies and parameters. 'BEAUti 2' (which is part of 'BEAST2') is a GUI tool that allows users to specify the many possible setups and generates the XML file 'BEAST2' needs to run. This package provides a way to create 'BEAST2' input files without active user input, but using R function calls instead.
#> 45 Parse a BibTeX file to a data.frame to make it accessible for further analysis and visualization.
#> 46 Utility to parse a bibtex file.
#> 47 Download and aggregate data from all public hire bicycle systems which provide open data, currently including 'Santander' Cycles in London, U.K.; from the U.S.A., 'Ford GoBike' in San Francisco CA, 'citibike' in New York City NY, 'Divvy' in Chicago IL, 'Capital Bikeshare' in Washington DC, 'Hubway' in Boston MA, 'Metro' in Los Angeles LA, 'Indego' in Philadelphia PA, and 'Nice Ride' in Minnesota; 'Bixi' from Montreal, Canada; and 'mibici' from Guadalajara, Mexico.
#> 48 Tools and functions for managing the download of binary files. Binary repositories are defined in 'YAML' format. Defining new pre-download, download and post-download templates allow additional repositories to be added.
#> 49 Perform large scale genomic data retrieval and functional annotation retrieval. This package aims to provide users with a standardized way to automate genome, proteome, 'RNA', coding sequence ('CDS'), 'GFF', and metagenome retrieval from 'NCBI RefSeq', 'NCBI Genbank', 'ENSEMBL', and 'UniProt' databases. Furthermore, an interface to the 'BioMart' database (Smedley et al. (2009) <doi:10.1186/1471-2164-10-22>) allows users to retrieve functional annotation for genomic loci. In addition, users can download entire databases such as 'NCBI RefSeq' (Pruitt et al. (2007) <doi:10.1093/nar/gkl842>), 'NCBI nr', 'NCBI nt', 'NCBI Genbank' (Benson et al. (2013) <doi:10.1093/nar/gks1195>), etc. with only one command.
#> 50 Generate estimated body size distributions for populations or communities of birds, given either species ID or species' mean body size. Designed to work naturally with the North American Breeding Bird Survey, or with any dataset of bird species, abundance, and/or mean size data.
#> 51 A programmatic interface to the Web Service methods provided by Bold Systems (<http://www.boldsystems.org/>) for genetic 'barcode' data. Functions include methods for searching by sequences by taxonomic names, ids, collectors, and institutions; as well as a function for searching for specimens, and downloading trace files.
#> 52 Tools to get and maintain a data repository from third-party data providers.
#> 53 Includes methods for fetching 'phylogenies' from a variety of sources, including the 'Phylomatic' web service (<http://phylodiversity.net/phylomatic/>), and 'Phylocom' (<https://github.com/phylocom/phylocom/>).
#> 54 Verification of continually updating time series data where we expect new values, but want to ensure previous data remains unchanged. Data previously recorded could change for a number of reasons, such as discovery of an error in model code, a change in methodology or instrument recalibration. Monitoring data sources for these changes is not always possible. Other unnoticed changes could include a jump in time or measurement frequency, due to instrument failure or software updates. Functionality is provided that can be used to check and flag changes to previous data to prevent changes going unnoticed, as well as unexpected jumps in time.
#> 55 Query different C14 date databases and apply basic data cleaning, merging and calibration steps. Currently available databases: 14cpalaeolithic, 14sea, adrac, agrichange, aida, austarch, bda, calpal, caribbean, eubar, euroevol, irdd, jomon, katsianis, kiteeastafrica, medafricarbon, mesorad, neonet, neonetatl, nerd, p3k14c, pacea, palmisano, rado.nb, rxpand, sard, xronos.
#> 56 A wrapper for the 'EZC3D' library to work with C3D motion capture data.
#> 57 Copernicus Atmosphere Monitoring Service (CAMS) Radiation Service provides time series of global, direct, and diffuse irradiations on horizontal surface, and direct irradiation on normal plane for the actual weather conditions as well as for clear-sky conditions. The geographical coverage is the field-of-view of the Meteosat satellite, roughly speaking Europe, Africa, Atlantic Ocean, Middle East. The time coverage of data is from 2004-02-01 up to 2 days ago. Data are available with a time step ranging from 15 min to 1 month. For license terms and to create an account, please see <http://www.soda-pro.com/web-services/radiation/cams-radiation-service>.
#> 58 Provides functions to analyze the spatial distribution of biodiversity, in particular categorical analysis of neo- and paleo-endemism (CANAPE) as described in Mishler et al (2014) <doi:10.1038/ncomms5473>. 'canaper' conducts statistical tests to determine the types of endemism that occur in a study area while accounting for the evolutionary relationships of species.
#> 59 Facilitates searching, download and plotting of Water Framework Directive (WFD) reporting data for all waterbodies within the UK Environment Agency area. The types of data that can be downloaded are: WFD status classification data, Reasons for Not Achieving Good (RNAG) status, objectives set for waterbodies, measures put in place to improve water quality and details of associated protected areas. The site accessed is <https://environment.data.gov.uk/catchment-planning/>. The data are made available under the Open Government Licence v3.0 <https://www.nationalarchives.gov.uk/doc/open-government-licence/version/3/>.
#> 60 Provee un acceso conveniente a mas de 17 millones de registros de la base de datos del Censo 2017. Los datos fueron importados desde el DVD oficial del INE usando el Convertidor REDATAM creado por Pablo De Grande. Esta paquete esta documentado intencionalmente en castellano asciificado para que funcione sin problema en diferentes plataformas. (Provides convenient access to more than 17 million records from the Chilean Census 2017 database. The datasets were imported from the official DVD provided by the Chilean National Bureau of Statistics by using the REDATAM converter created by Pablo De Grande and in addition it includes the maps accompanying these datasets.)
#> 61 The Citation File Format version 1.2.0 <doi:10.5281/zenodo.5171937> is a human and machine readable file format which provides citation metadata for software. This package provides core utilities to generate and validate this metadata.
#> 62 Make fake data that looks realistic, supporting addresses, person names, dates, times, colors, coordinates, currencies, digital object identifiers ('DOIs'), jobs, phone numbers, 'DNA' sequences, doubles and integers from distributions and within a range.
#> 63 API Client for the Climate Hazards Center 'CHIRPS' and 'CHIRTS'. The 'CHIRPS' data is a quasi-global (50°S – 50°N) high-resolution (0.05 arc-degrees) rainfall data set, which incorporates satellite imagery and in-situ station data to create gridded rainfall time series for trend analysis and seasonal drought monitoring. 'CHIRTS' is a quasi-global (60°S – 70°N), high-resolution data set of daily maximum and minimum temperatures. For more details on 'CHIRPS' and 'CHIRTS' data please visit its official home page <https://www.chc.ucsb.edu/data>.
#> 64 As different antipsychotic medications have different potencies, the doses of different medications cannot be directly compared. Various strategies are used to convert doses into a common reference so that comparison is meaningful. Chlorpromazine (CPZ) has historically been used as a reference medication into which other antipsychotic doses can be converted, as "chlorpromazine-equivalent doses". Using conversion keys generated from widely-cited scientific papers, e.g. Gardner et. al 2010 <doi:10.1176/appi.ajp.2009.09060802> and Leucht et al. 2016 <doi:10.1093/schbul/sbv167>, antipsychotic doses are converted to CPZ (or any specified antipsychotic) equivalents. The use of the package is described in the included vignette. Not for clinical use.
#> 65 Geospatial data computation is parallelized by grid, hierarchy, or raster files. Based on future and mirai parallel backends, terra and sf functions as well as convenience functions in the package can be distributed over multiple threads. The simplest way of parallelizing generic geospatial computation is to start from `par_pad_*` functions to `par_grid`, `par_hierarchy`, or `par_multirasters` functions. Virtually any functions accepting classes in terra or sf packages can be used in the three parallelization functions. A common raster-vector overlay operation is provided as a function `extract_at`, which uses exactextractr, with options for kernel weights for summarizing raster values at vector geometries. Other convenience functions for vector-vector operations including simple areal interpolation (`summarize_aw`) and summation of exponentially decaying weights (`summarize_sedc`) are also provided.
#> 66 A programmatic interface to the Chromosome Counts Database (<https://taux.evolseq.net/CCDB_web/>), Rice et al. (2014) <doi:10.1111/nph.13191>. This package is part of the 'ROpenSci' suite (<https://ropensci.org>).
#> 67 Tools for interacting with the 'Circle CI' API (<https://circleci.com/docs/api/v2/>). Besides executing common tasks such as querying build logs and restarting builds, this package also helps setting up permissions to deploy from builds.
#> 68 Client for the Open Citations Corpus (<http://opencitations.net/>). Includes a set of functions for getting one identifier type from another, as well as getting references and citations for a given identifier.
#> 69 Client for 'CKAN' API (<https://ckan.org/>). Includes interface to 'CKAN' 'APIs' for search, list, show for packages, organizations, and resources. In addition, provides an interface to the 'datastore' API.
#> 70 Bindings to Google's C++ library Compact Language Detector 2 (see <https://github.com/cld2owners/cld2#readme> for more information). Probabilistically detects over 80 languages in plain text or HTML. For mixed-language input it returns the top three detected languages and their approximate proportion of the total classified text bytes (e.g. 80% English and 20% French out of 1000 bytes). There is also a 'cld3' package on CRAN which uses a neural network model instead.
#> 71 Google's Compact Language Detector 3 is a neural network model for language identification and the successor of 'cld2' (available from CRAN). The algorithm is still experimental and takes a novel approach to language detection with different properties and outcomes. It can be useful to combine this with the Bayesian classifier results from 'cld2'. See <https://github.com/google/cld3#readme> for more information.
#> 72 The 'Codemeta' Project defines a 'JSON-LD' format for describing software metadata, as detailed at <https://codemeta.github.io>. This package provides utilities to generate, parse, and modify 'codemeta.json' files automatically for R packages, as well as tools and examples for working with 'codemeta.json' 'JSON-LD' more generally.
#> 73 Fast categorization of items based on external code data identified by regular expressions. A typical use case considers patient with medically coded data, such as codes from the International Classification of Diseases ('ICD') or the Anatomic Therapeutic Chemical ('ATC') classification system. Functions of the package relies on a triad of objects: (1) case data with unit id:s and possible dates of interest; (2) external code data for corresponding units in (1) and with optional dates of interest and; (3) a classification scheme ('classcodes' object) with regular expressions to identify and categorize relevant codes from (2). It is easy to introduce new classification schemes ('classcodes' objects) or to use default schemes included in the package. Use cases includes patient categorization based on 'comorbidity indices' such as 'Charlson', 'Elixhauser', 'RxRisk V', or the 'comorbidity-polypharmacy' score (CPS), as well as adverse events after hip and knee replacement surgery.
#> 74 Automate the co-localization analysis of fluorescence microscopy images. Selecting regions of interest, extract pixel intensities from the image channels and calculate different co-localization statistics. The methods implemented in this package are based on Dunn et al. (2011) <doi:10.1152/ajpcell.00462.2010>.
#> 75 Interface with and extract data from the United Nations 'Comtrade' API <https://comtradeplus.un.org/>. 'Comtrade' provides country level shipping data for a variety of commodities, these functions allow for easy API query and data returned as a tidy data frame.
#> 76 Based on individual market shares of all participants in a market or space, the package offers a set of different structural and concentration measures frequently - and not so frequently - used in research and in practice. Measures can be calculated in groups or individually. The calculated measure or the resulting vector in table format should help practitioners make more informed decisions. Methods used in this package are from: 1. Chang, E. J., Guerra, S. M., de Souza Penaloza, R. A. & Tabak, B. M. (2005) "Banking concentration: the Brazilian case". 2. Cobham, A. and A. Summer (2013). "Is It All About the Tails? The Palma Measure of Income Inequality". 3. Garcia Alba Idunate, P. (1994). "Un Indice de dominancia para el analisis de la estructura de los mercados". 4. Ginevicius, R. and S. Cirba (2009). "Additive measurement of market concentration" <doi:10.3846/1611-1699.2009.10.191-198>. 5. Herfindahl, O. C. (1950), "Concentration in the steel industry" (PhD thesis). 6. Hirschmann, A. O. (1945), "National power and structure of foreign trade". 7. Melnik, A., O. Shy, and R. Stenbacka (2008), "Assessing market dominance" <doi:10.1016/j.jebo.2008.03.010>. 8. Palma, J. G. (2006). "Globalizing Inequality: 'Centrifugal' and 'Centripetal' Forces at Work". 9. Shannon, C. E. (1948). "A Mathematical Theory of Communication". 10. Simpson, E. H. (1949). "Measurement of Diversity" <doi:10.1038/163688a0>.
#> 77 Automated flagging of common spatial and temporal errors in biological and paleontological collection data, for the use in conservation, ecology and paleontology. Includes automated tests to easily flag (and exclude) records assigned to country or province centroid, the open ocean, the headquarters of the Global Biodiversity Information Facility, urban areas or the location of biodiversity institutions (museums, zoos, botanical gardens, universities). Furthermore identifies per species outlier coordinates, zero coordinates, identical latitude/longitude and invalid coordinates. Also implements an algorithm to identify data sets with a significant proportion of rounded coordinates. Especially suited for large data sets. The reference for the methodology is: Zizka et al. (2019) <doi:10.1111/2041-210X.13152>.
#> 78 A tiny package to generate CRediT author statements (<https://credit.niso.org/>). It provides three functions: create a template, read it back and generate the CRediT author statement in a text file.
#> 79 Builds a 'SQLite' database file of pre-calculated transcription factor/microRNA-gene correlations (co-expression) in cancer from the Cistrome Cancer Liu et al. (2011) <doi:10.1186/gb-2011-12-8-r83> and 'miRCancerdb' databases (in press). Provides custom classes and functions to query, tidy and plot the correlation data.
#> 80 A simple HTTP client, with tools for making HTTP requests, and mocking HTTP requests. The package is built on R6, and takes inspiration from Ruby's 'faraday' gem (<https://rubygems.org/gems/faraday>). The package name is a play on curl, the widely used command line tool for HTTP, and this package is built on top of the R package 'curl', an interface to 'libcurl' (<https://curl.se/libcurl/>).
#> 81 Encryption wrappers, using low-level support from 'sodium' and 'openssl'. 'cyphr' tries to smooth over some pain points when using encryption within applications and data analysis by wrapping around differences in function names and arguments in different encryption providing packages. It also provides high-level wrappers for input/output functions for seamlessly adding encryption to existing analyses.
#> 82 Generate reports that enable quick visual review of temporal shifts in record-level data. Time series plots showing aggregated values are automatically created for each data field (column) depending on its contents (e.g. min/max/mean values for numeric data, no. of distinct values for categorical data), as well as overviews for missing values, non-conformant values, and duplicated rows. The resulting reports are shareable and can contribute to forming a transparent record of the entire analysis process. It is designed with Electronic Health Records in mind, but can be used for any type of record-level temporal data (i.e. tabular data where each row represents a single "event", one column contains the "event date", and other columns contain any associated values for the event).
#> 83 AIMS Data Platform API Client which provides easy access to AIMS Data Platform scientific data and information.
#> 84 Provides a flexible container to transport and manipulate complex sets of data. These data may consist of multiple data files and associated meta data and ancillary files. Individual data objects have associated system level meta data, and data files are linked together using the OAI-ORE standard resource map which describes the relationships between the files. The OAI- ORE standard is described at <https://www.openarchives.org/ore/>. Data packages can be serialized and transported as structured files that have been created following the BagIt specification. The BagIt specification is described at <https://tools.ietf.org/html/draft-kunze-bagit-08>.
#> 85 A framework to help construct R data packages in a reproducible manner. Potentially time consuming processing of raw data sets into analysis ready data sets is done in a reproducible manner and decoupled from the usual 'R CMD build' process so that data sets can be processed into R objects in the data package and the data package can then be shared, built, and installed by others without the need to repeat computationally costly data processing. The package maintains data provenance by turning the data processing scripts into package vignettes, as well as enforcing documentation and version checking of included data objects. Data packages can be version controlled on 'GitHub', and used to share data for manuscripts, collaboration and reproducible research.
#> 86 Provides a convenient API interface to access immunological data within 'the CAVD DataSpace'(<https://dataspace.cavd.org>), a data sharing and discovery tool that facilitates exploration of HIV immunological data from pre-clinical and clinical HIV vaccine studies.
#> 87 The goal of 'dataspice' is to make it easier for researchers to create basic, lightweight, and concise metadata files for their datasets. These basic files can then be used to make useful information available during analysis, create a helpful dataset "README" webpage, and produce more complex metadata formats to aid dataset discovery. Metadata fields are based on the 'Schema.org' and 'Ecological Metadata Language' standards.
#> 88 There are many different formats dates are commonly represented with: the order of day, month, or year can differ, different separators ("-", "/", or whitespace) can be used, months can be numerical, names, or abbreviations and year given as two digits or four. 'datefixR' takes dates in all these different formats and converts them to R's built-in date class. If 'datefixR' cannot standardize a date, such as because it is too malformed, then the user is told which date cannot be standardized and the corresponding ID for the row. 'datefixR' also allows the imputation of missing days and months with user-controlled behavior.
#> 89 This tool is for parsing public drug databases such as 'DrugBank' XML database <https://go.drugbank.com/>. The parsed data are then returned in a proper 'R' object called 'dvobject'.
#> 90 Creating dendrochronological networks based on the similarity between tree-ring series or chronologies. The package includes various functions to compare tree-ring curves building upon the 'dplR' package. The networks can be used to visualise and understand the relations between tree-ring curves. These networks are also very useful to estimate the provenance of wood as described in Visser (2021) <DOI:10.5334/jcaa.79> or wood-use within a structure/context/site as described in Visser and Vorst (2022) <DOI:10.1163/27723194-bja10014>.
#> 91 Testing and documenting code that communicates with remote databases can be painful. Although the interaction with R is usually relatively simple (e.g. data(frames) passed to and from a database), because they rely on a separate service and the data there, testing them can be difficult to set up, unsustainable in a continuous integration environment, or impossible without replicating an entire production cluster. This package addresses that by allowing you to make recordings from your database interactions and then play them back while testing (or in other contexts) all without needing to spin up or have access to the database your code would typically connect to.
#> 92 This is a data package providing Drosophila odorant response data for DoOR.functions. See URLs for the original and the DoOR 2.0 publications.
#> 93 This is a function package providing functions to perform data manipulations and visualizations for DoOR.data. See the URLs for the original and the DoOR 2.0 publication.
#> 94 A general-purpose computational engine for data analysis, drake rebuilds intermediate data objects when their dependencies change, and it skips work when the results are already up to date. Not every execution starts from scratch, there is native support for parallel and distributed computing, and completed projects have tangible evidence that they are reproducible. Extensive documentation, from beginner-friendly tutorials to practical examples and more, is available at the reference website <https://docs.ropensci.org/drake/> and the online manual <https://books.ropensci.org/drake/>.
#> 95 Edit and validate taxonomic data in compliance with Darwin Core standards (Darwin Core 'Taxon' class <https://dwc.tdwg.org/terms/#taxon>).
#> 96 Easy-to-use and efficient interface for Bayesian inference of complex panel (time series) data using dynamic multivariate panel models by Helske and Tikka (2024) <doi:10.1016/j.alcr.2024.100617>. The package supports joint modeling of multiple measurements per individual, time-varying and time-invariant effects, and a wide range of discrete and continuous distributions. Estimation of these dynamic multivariate panel models is carried out via 'Stan'. For an in-depth tutorial of the package, see (Tikka and Helske, 2024) <doi:10.48550/arXiv.2302.01607>.
#> 97 A client for the Environmental Data Initiative repository REST API. The 'EDI' data repository <https://portal.edirepository.org/nis/home.jsp> is for publication and reuse of ecological data with emphasis on metadata accuracy and completeness. It is built upon the 'PASTA+' software stack <https://pastaplus-core.readthedocs.io/en/latest/index.html#> and was developed in collaboration with the US 'LTER' Network <https://lternet.edu/>. 'EDIutils' includes functions to search and access existing data, evaluate and upload new data, and assist other data management tasks common to repository users.
#> 98 Models integrate environmental DNA (eDNA) detection data and traditional survey data to jointly estimate species catch rate (see package vignette: <https://ednajoint.netlify.app/>). Models can be used with count data via traditional survey methods (i.e., trapping, electrofishing, visual) and replicated eDNA detection/nondetection data via polymerase chain reaction (i.e., PCR or qPCR) from multiple survey locations. Estimated parameters include probability of a false positive eDNA detection, a site-level covariates that scale the sensitivity of eDNA surveys relative to traditional surveys, and gear scaling coefficients for traditional gear types. Models are implemented with a Bayesian framework (Markov chain Monte Carlo) using the 'Stan' probabilistic programming language.
#> 99 Provides API access to data from the U.S. Energy Information Administration ('EIA') <https://www.eia.gov/>. Use of the EIA's API and this package requires a free API key obtainable at <https://www.eia.gov/opendata/register.php>. This package includes functions for searching the EIA data directory and returning time series and geoset time series datasets. Datasets returned by these functions are provided by default in a tidy format, or alternatively, in more raw formats. It also offers helper functions for working with EIA date strings and time formats and for inspecting different summaries of series metadata. The package also provides control over API key storage and caching of API request results.
#> 100 Connect to 'Elasticsearch', a 'NoSQL' database built on the 'Java' Virtual Machine. Interacts with the 'Elasticsearch' 'HTTP' API (<https://www.elastic.co/elasticsearch/>), including functions for setting connection details to 'Elasticsearch' instances, loading bulk data, searching for documents with both 'HTTP' query variables and 'JSON' based body requests. In addition, 'elastic' provides functions for interacting with API's for 'indices', documents, nodes, clusters, an interface to the cat API, and more.
#> 101 Work with Ecological Metadata Language ('EML') files. 'EML' is a widely used metadata standard in the ecological and environmental sciences, described in Jones et al. (2006), <doi:10.1146/annurev.ecolsys.37.091305.110031>.
#> 102 This is a utility for transforming Ecological Metadata Language ('EML') files into 'JSON-LD' and back into 'EML.' Doing so creates a list-based representation of 'EML' in R, so that 'EML' data can easily be manipulated using standard 'R' tools. This makes this package an effective backend for other 'R'-based tools working with 'EML.' By abstracting away the complexity of 'XML' Schema, developers can build around native 'R' list objects and not have to worry about satisfying many of the additional constraints of set by the schema (such as element ordering, which is handled automatically). Additionally, the 'JSON-LD' representation enables the use of developer-friendly 'JSON' parsing and serialization that may facilitate the use of 'EML' in contexts outside of 'R,' as well as the informatics-friendly serializations such as 'RDF' and 'SPARQL' queries.
#> 103 This script comprises the functions that are used to clean up endoscopic reports and pathology reports as well as many of the scripts used for analysis. The scripts assume the endoscopy and histopathology data set is merged already but it can also be used of course with the unmerged datasets.
#> 104 Aid the user in making queries to the EPA API site found at https://aqs.epa.gov/aqsweb/documents/data_api. This package combines API calling methods from various web scraping packages with specific strings to retrieve data from the EPA API. It also contains easy to use loaded variables that help a user navigate services offered by the API and aid the user in determining the appropriate way to make a an API call.
#> 105 Tools to download and manipulate the Permanent Household Survey from Argentina (EPH is the Spanish acronym for Permanent Household Survey). e.g: get_microdata() for downloading the datasets, get_poverty_lines() for downloading the official poverty baskets, calculate_poverty() for the calculation of stating if a household is in poverty or not, following the official methodology. organize_panels() is used to concatenate observations from different periods, and organize_labels() adds the official labels to the data. The implemented methods are based on INDEC (2016) <http://www.estadistica.ec.gba.gov.ar/dpe/images/SOCIEDAD/EPH_metodologia_22_pobreza.pdf>. As this package works with the argentinian Permanent Household Survey and its main audience is from this country, the documentation was written in Spanish.
#> 106 Provides functions supporting the reading and parsing of internal e-book content from EPUB files. The 'epubr' package provides functions supporting the reading and parsing of internal e-book content from EPUB files. E-book metadata and text content are parsed separately and joined together in a tidy, nested tibble data frame. E-book formatting is not completely standardized across all literature. It can be challenging to curate parsed e-book content across an arbitrary collection of e-books perfectly and in completely general form, to yield a singular, consistently formatted output. Many EPUB files do not even contain all the same pieces of information in their respective metadata. EPUB file parsing functionality in this package is intended for relatively general application to arbitrary EPUB e-books. However, poorly formatted e-books or e-books with highly uncommon formatting may not work with this package. There may even be cases where an EPUB file has DRM or some other property that makes it impossible to read with 'epubr'. Text is read 'as is' for the most part. The only nominal changes are minor substitutions, for example curly quotes changed to straight quotes. Substantive changes are expected to be performed subsequently by the user as part of their text analysis. Additional text cleaning can be performed at the user's discretion, such as with functions from packages like 'tm' or 'qdap'.
#> 107 Download data from the European Social Survey directly from their website <http://www.europeansocialsurvey.org/>. There are two families of functions that allow you to download and interactively check all countries and rounds available.
#> 108 An R Client for the Europe PubMed Central RESTful Web Service (see <https://europepmc.org/RestfulWebService> for more information). It gives access to both metadata on life science literature and open access full texts. Europe PMC indexes all PubMed content and other literature sources including Agricola, a bibliographic database of citations to the agricultural literature, or Biological Patents. In addition to bibliographic metadata, the client allows users to fetch citations and reference lists. Links between life-science literature and other EBI databases, including ENA, PDB or ChEMBL are also accessible. No registration or API key is required. See the vignettes for usage examples.
#> 109 Data that are collected through online sources such as Mechanical Turk may require excluding rows because of IP address duplication, geolocation, or completion duration. This package facilitates exclusion of these data for Qualtrics datasets.
#> 110 The goal of exoplanets is to provide access to NASA's Exoplanet Archive TAP Service. For more information regarding the API please read the documentation <https://exoplanetarchive.ipac.caltech.edu/index.html>.
#> 111 An extension of 'knitr' that adds flexibility in several ways. One common source of frustration with 'knitr' is that it assumes the directory where the source file lives should be the working directory, which is often not true. 'ezknitr' addresses this problem by giving you complete control over where all the inputs and outputs are, and adds several other convenient features to make rendering markdown/HTML documents easier.
#> 112 An interface to the 'fast_matrix_market' 'C++' library, this package offers efficient read and write operations for Matrix Market files in R. It supports both sparse and dense matrix formats. Peer-reviewed at ROpenSci (<https://github.com/ropensci/software-review/issues/606>).
#> 113 Download geospatial data available from several federated data sources (mainly sources maintained by the US Federal government). Currently, the package enables extraction from nine datasets: The National Elevation Dataset digital elevation models (<https://www.usgs.gov/3d-elevation-program> 1 and 1/3 arc-second; USGS); The National Hydrography Dataset (<https://www.usgs.gov/national-hydrography/national-hydrography-dataset>; USGS); The Soil Survey Geographic (SSURGO) database from the National Cooperative Soil Survey (<https://websoilsurvey.sc.egov.usda.gov/>; NCSS), which is led by the Natural Resources Conservation Service (NRCS) under the USDA; the Global Historical Climatology Network (<https://www.ncei.noaa.gov/products/land-based-station/global-historical-climatology-network-daily>; GHCN), coordinated by National Climatic Data Center at NOAA; the Daymet gridded estimates of daily weather parameters for North America, version 4, available from the Oak Ridge National Laboratory's Distributed Active Archive Center (<https://daymet.ornl.gov/>; DAAC); the International Tree Ring Data Bank; the National Land Cover Database (<https://www.mrlc.gov/>; NLCD); the Cropland Data Layer from the National Agricultural Statistics Service (<https://www.nass.usda.gov/Research_and_Science/Cropland/SARS1a.php>; NASS); and the PAD-US dataset of protected area boundaries (<https://www.usgs.gov/programs/gap-analysis-project/science/pad-us-data-overview>; USGS).
#> 114 fellingdater is an R package that aims to facilitate the analysis and interpretation of tree-ring data from wooden cultural heritage objects and structures. The package standardizes the process of computing and combining felling date estimates, both for individual and groups of related tree-ring series.
#> 115 Fingertips (<http://fingertips.phe.org.uk/>) contains data for many indicators of public health in England. The underlying data is now more easily accessible by making use of the API.
#> 116 Methods for computing and visualizing wildfire igntion exposure and directional vulnerability that are published in a series of scientific publications are automated by the functions in this package. See Beverly et al. (2010) <doi:10.1071/WF09071>, Beverly et al. (2021) <doi:10.1007/s10980-020-01173-8>, and Beverly and Forbes (2023) <doi:10.1007/s11069-023-05885-3> for background and methodology.
#> 117 Bindings to 'libfluidsynth' to parse and synthesize MIDI files. It can read MIDI into a data frame, play it on the local audio device, or convert into an audio file.
#> 118 Provides an interface to the 'FORCIS' database (Chaabane et al. (2024) <doi:10.5281/zenodo.7390791>) on global foraminifera distribution. This package allows to download and to handle 'FORCIS' data. It is part of the FRB-CESAB working group FORCIS. <https://www.fondationbiodiversite.fr/en/the-frb-in-action/programs-and-projects/le-cesab/forcis/>.
#> 119 A high performance interface to the Global Biodiversity Information Facility, 'GBIF'. In contrast to 'rgbif', which can access small subsets of 'GBIF' data through web-based queries to a central server, 'gbifdb' provides enhanced performance for R users performing large-scale analyses on servers and cloud computing providers, providing full support for arbitrary 'SQL' or 'dplyr' operations on the complete 'GBIF' data tables (now over 1 billion records, and over a terabyte in size). 'gbifdb' accesses a copy of the 'GBIF' data in 'parquet' format, which is already readily available in commercial computing clouds such as the Amazon Open Data portal and the Microsoft Planetary Computer, or can be accessed directly without downloading, or downloaded to any server with suitable bandwidth and storage space. The high-performance techniques for local and remote access are described in <https://duckdb.org/why_duckdb> and <https://arrow.apache.org/docs/r/articles/fs.html> respectively.
#> 120 Provides functions and dictionaries for recoding of freetext gender responses into more consistent categories.
#> 121 Classes for 'GeoJSON' to make working with 'GeoJSON' easier. Includes S3 classes for 'GeoJSON' classes with brief summary output, and a few methods such as extracting and adding bounding boxes, properties, and coordinate reference systems; working with newline delimited 'GeoJSON'; and serializing to/from 'Geobuf' binary 'GeoJSON' format.
#> 122 Convert data to 'GeoJSON' or 'TopoJSON' from various R classes, including vectors, lists, data frames, shape files, and spatial classes. 'geojsonio' does not aim to replace packages like 'sp', 'rgdal', 'rgeos', but rather aims to be a high level client to simplify conversions of data from and to 'GeoJSON' and 'TopoJSON'.
#> 123 The web service at <https://www.geonames.org/> provides a number of spatial data queries, including administrative area hierarchies, city locations and some country postal code queries. A (free) username is required and rate limits exist.
#> 124 Provides extensions for various geographic spatial file formats, such as shape files and rasters. Currently provides support for the 'terra' geographic spatial formats. See the vignettes for worked examples, demonstrations, and explanations of how to use the various package extensions.
#> 125 Provides functions that automate downloading and importing University of East Anglia Climate Research Unit ('CRU') 'CL' v. 2.0 climatology data, facilitates the calculation of minimum temperature and maximum temperature and formats the data into a data.table object or a list of 'terra' 'rast' objects for use. 'CRU' 'CL' v. 2.0 data are a gridded climatology of 1961-1990 monthly means released in 2002 and cover all land areas (excluding Antarctica) at 10 arc minutes (0.1666667 degree) resolution. For more information see the description of the data provided by the University of East Anglia Climate Research Unit, <https://crudata.uea.ac.uk/cru/data/hrg/tmc/readme.txt>.
#> 126 A 'GraphQL' client, with an R6 interface for initializing a connection to a 'GraphQL' instance, and methods for constructing queries, including fragments and parameterized queries. Queries are checked with the 'libgraphqlparser' C++ parser via the 'graphql' package.
#> 127 Convert between anthropometric measures and z-scores/centiles in multiple growth standards, and classify fetal, newborn, and child growth accordingly. With a simple interface to growth standards from the World Health Organisation and International Fetal and Newborn Growth Consortium for the 21st Century, gigs makes growth assessment easy and reproducible for clinicians, researchers and policy-makers.
#> 128 Work with 'GitHub' 'gists' from 'R' (e.g., <https://en.wikipedia.org/wiki/GitHub#Gist>, <https://docs.github.com/en/github/writing-on-github/creating-gists/>). A 'gist' is simply one or more files with code/text/images/etc. This package allows the user to create new 'gists', update 'gists' with new files, rename files, delete files, get and delete 'gists', star and 'un-star' 'gists', fork 'gists', open a 'gist' in your default browser, get embed code for a 'gist', list 'gist' 'commits', and get rate limit information when 'authenticated'. Some requests require authentication and some do not. 'Gists' website: <https://gist.github.com/>.
#> 129 Interface to the 'libgit2' library, which is a pure C implementation of the 'Git' core methods. Provides access to 'Git' repositories to extract data and running some basic 'Git' commands.
#> 130 The git2rdata package is an R package for writing and reading dataframes as plain text files. A metadata file stores important information. 1) Storing metadata allows to maintain the classes of variables. By default, git2rdata optimizes the data for file storage. The optimization is most effective on data containing factors. The optimization makes the data less human readable. The user can turn this off when they prefer a human readable format over smaller files. Details on the implementation are available in vignette("plain_text", package = "git2rdata"). 2) Storing metadata also allows smaller row based diffs between two consecutive commits. This is a useful feature when storing data as plain text files under version control. Details on this part of the implementation are available in vignette("version_control", package = "git2rdata"). Although we envisioned git2rdata with a git workflow in mind, you can use it in combination with other version control systems like subversion or mercurial. 3) git2rdata is a useful tool in a reproducible and traceable workflow. vignette("workflow", package = "git2rdata") gives a toy example. 4) vignette("efficiency", package = "git2rdata") provides some insight into the efficiency of file storage, git repository size and speed for writing and reading.
#> 131 Simple interface to query gitignore.io to fetch gitignore templates that can be included in the .gitignore file. More than 450 templates are currently available.
#> 132 In computationally demanding data analysis pipelines, the 'targets' R package (2021, <doi:10.21105/joss.02959>) maintains an up-to-date set of results while skipping tasks that do not need to rerun. This process increases speed and increases trust in the final end product. However, it also overwrites old output with new output, and past results disappear by default. To preserve historical output, the 'gittargets' package captures version-controlled snapshots of the data store, and each snapshot links to the underlying commit of the source code. That way, when the user rolls back the code to a previous branch or commit, 'gittargets' can recover the data contemporaneous with that commit so that all targets remain up to date.
#> 133 Allows users to fit a cosinor model using the 'glmmTMB' framework. This extends on existing cosinor modeling packages, including 'cosinor' and 'circacompare', by including a wide range of available link functions and the capability to fit mixed models. The cosinor model is described by Cornelissen (2014) <doi:10.1186/1742-4682-11-16>.
#> 134 Call 'Google Cloud' machine learning APIs for text and speech tasks. Call the 'Cloud Translation' API <https://cloud.google.com/translate/> for detection and translation of text, the 'Natural Language' API <https://cloud.google.com/natural-language/> to analyse text for sentiment, entities or syntax, the 'Cloud Speech' API <https://cloud.google.com/speech/> to transcribe sound files to text and the 'Cloud Text-to-Speech' API <https://cloud.google.com/text-to-speech/> to turn text into sound files.
#> 135 Data aggregation via moving window or direct methods. Aggregate a fine-resolution raster to a grid. The moving window method smooths the surface using a specified function within a moving window of a specified size and shape prior to aggregation. The direct method simply aggregates to the grid using the specified function.
#> 136 Bindings to the 'libgraphqlparser' C++ library. Parses GraphQL <https://graphql.org> syntax and exports the AST in JSON format.
#> 137 Provides automated downloading, parsing, cleaning, unit conversion and formatting of Global Surface Summary of the Day ('GSOD') weather data from the from the USA National Centers for Environmental Information ('NCEI'). Units are converted from from United States Customary System ('USCS') units to International System of Units ('SI'). Stations may be individually checked for number of missing days defined by the user, where stations with too many missing observations are omitted. Only stations with valid reported latitude and longitude values are permitted in the final data. Additional useful elements, saturation vapour pressure ('es'), actual vapour pressure ('ea') and relative humidity ('RH') are calculated from the original data using the improved August-Roche-Magnus approximation (Alduchov & Eskridge 1996) and included in the final data set. The resulting metadata include station identification information, country, state, latitude, longitude, elevation, weather observations and associated flags. For information on the 'GSOD' data from 'NCEI', please see the 'GSOD' 'readme.txt' file available from, <https://www1.ncdc.noaa.gov/pub/data/gsod/readme.txt>.
#> 138 A convenient R interface to the Genotype-Tissue Expression (GTEx) Portal API. The GTEx project is a comprehensive public resource for studying tissue-specific gene expression and regulation in human tissues. Through systematic analysis of RNA sequencing data from 54 non-diseased tissue sites across nearly 1000 individuals, GTEx provides crucial insights into the relationship between genetic variation and gene expression. This data is accessible through the GTEx Portal API enabling programmatic access to human gene expression data. For more information on the API, see <https://gtexportal.org/api/v2/redoc>.
#> 139 Download and process public domain works in the Project Gutenberg collection <https://www.gutenberg.org/>. Includes metadata for all Project Gutenberg works, so that they can be searched and retrieved.
#> 140 Converts among many citation formats, including 'BibTeX', 'Citeproc', 'Codemeta', 'RDF XML', 'RIS', 'Schema.org', and 'Citation File Format'. A low level 'R6' class is provided, as well as stand-alone functions for each citation format for both read and write.
#> 141 Tools to discover hydrological data, accessing catalogues and databases from various data providers. The package is described in Vitolo (2017) "hddtools: Hydrological Data Discovery Tools" <doi:10.21105/joss.00056>.
#> 142 Access to large host-parasite data is often hampered by the availability of data and difficulty in obtaining it in a programmatic way to encourage analyses. 'helminthR' provides a programmatic interface to the London Natural History Museum's host-parasite database, one of the largest host-parasite databases existing currently <https://www.nhm.ac.uk/research-curation/scientific-resources/taxonomy-systematics/host-parasites/>. The package allows the user to query by host species, parasite species, and geographic location.
#> 143 These sample data sets are intended for historians learning R. They include population, institutional, religious, military, and prosopographical data suitable for mapping, quantitative analysis, and network analysis.
#> 144 Suite of tools for managing cached files, targeting use in other R packages. Uses 'rappdirs' for cross-platform paths. Provides utilities to manage cache directories, including targeting files by path or by key; cached directories can be compressed and uncompressed easily to save disk space.
#> 145 Low level spell checker and morphological analyzer based on the famous 'hunspell' library <https://hunspell.github.io>. The package can analyze or check individual words as well as parse text, latex, html or xml documents. For a more user-friendly interface use the 'spelling' package which builds on this package to automate checking of files, documentation and vignettes in all common formats.
#> 146 R interface to the Greek National Data Bank for Hydrological and Meteorological Information. It covers Hydroscope's data sources and provides functions to transliterate, translate and download them into tidy dataframes.
#> 147 Make complex, interactive heatmaps. 'iheatmapr' includes a modular system for iteratively building up complex heatmaps, as well as the iheatmap() function for making relatively standard heatmaps.
#> 148 General purpose TIFF file I/O for R users. Currently the only such package with read and write support for TIFF files with floating point (real-numbered) pixels, and the only package that can correctly import TIFF files that were saved from 'ImageJ' and write TIFF files than can be correctly read by 'ImageJ' <https://imagej.net/ij/>. Also supports text image I/O.
#> 149 Search the Internet Archive (<https://archive.org>), retrieve metadata, and download files.
#> 150 Bayesian data analysis usually incurs long runtimes and cumbersome custom code. A pipeline toolkit tailored to Bayesian statisticians, the 'jagstargets' R package is leverages 'targets' and 'R2jags' to ease this burden. 'jagstargets' makes it super easy to set up scalable JAGS pipelines that automatically parallelize the computation and skip expensive steps when the results are already up to date. Minimal custom code is required, and there is no need to manually configure branching, so usage is much easier than 'targets' alone. For the underlying methodology, please refer to the documentation of 'targets' <doi:10.21105/joss.02959> and 'JAGS' (Plummer 2003) <https://www.r-project.org/conferences/DSC-2003/Proceedings/Plummer.pdf>.
#> 151 Manage jobs and builds on your Jenkins CI server <https://jenkins.io/>. Create and edit projects, schedule builds, manage the queue, download build logs, and much more.
#> 152 Client for 'jq', a 'JSON' processor (<https://jqlang.github.io/jq/>), written in C. 'jq' allows the following with 'JSON' data: index into, parse, do calculations, cut up and filter, change key names and values, perform conditionals and comparisons, and more.
#> 153 JSON-LD <https://www.w3.org/TR/json-ld/> is a light-weight syntax for expressing linked data. It is primarily intended for web-based programming environments, interoperable web services and for storing linked data in JSON-based databases. This package provides bindings to the JavaScript library for converting, expanding and compacting JSON-LD documents.
#> 154 Uses the node library 'is-my-json-valid' or 'ajv' to validate 'JSON' against a 'JSON' schema. Drafts 04, 06 and 07 of 'JSON' schema are supported.
#> 155 Functions and helpers to import metadata, ngrams and full-texts delivered by Data for Research by JSTOR.
#> 156 This is the R implementation of Karel the robot, a programming language created by Dr. R. E. Pattis at Stanford University in 1981. Karel is an useful tool to teach introductory concepts about general programming, such as algorithmic decomposition, conditional statements, loops, etc., in an interactive and fun way, by writing programs to make Karel the robot achieve certain tasks in the world she lives in. Originally based on Pascal, Karel was implemented in many languages through these decades, including 'Java', 'C++', 'Ruby' and 'Python'. This is the first package implementing Karel in R.
#> 157 Convert latex math expressions to HTML and 'MathML' for use in markdown documents or package manual pages. The rendering is done in R using the V8 engine (i.e. server-side), which eliminates the need for embedding the 'MathJax' library into your web pages. In addition a 'math-to-rd' wrapper is provided to automatically render beautiful math in R documentation files.
#> 158 Provides utility functions for some of the less-glamorous tasks involved in landscape analysis. It includes functions to coerce raster data to the common tibble format and vice versa, it helps with flexible reclassification tasks of raster data and it provides a function to merge multiple raster. Furthermore, 'landscapetools' helps landscape scientists to visualize their data by providing optional themes and utility functions to plot single landscapes, rasterstacks, -bricks and lists of raster.
#> 159 Parse various reflectance/transmittance/absorbance spectra file formats to extract spectral data and metadata, as described in Gruson, White & Maia (2019) <doi:10.21105/joss.01857>. Among other formats, it can import files from 'Avantes' <https://www.avantes.com/>, 'CRAIC' <https://www.microspectra.com/>, and 'OceanOptics'/'OceanInsight' <https://www.oceanoptics.com/> brands.
#> 160 Provides R with the Glottolog database <https://glottolog.org/> and some more abilities for purposes of linguistic mapping. The Glottolog database contains the catalogue of languages of the world. This package helps researchers to make a linguistic maps, using philosophy of the Cross-Linguistic Linked Data project <https://clld.org/>, which allows for while at the same time facilitating uniform access to the data across publications. A tutorial for this package is available on GitHub pages <https://docs.ropensci.org/lingtypology/> and package vignette. Maps created by this package can be used both for the investigation and linguistic teaching. In addition, package provides an ability to download data from typological databases such as WALS, AUTOTYP and some others and to create your own database website.
#> 161 Bindings to 'ImageMagick': the most comprehensive open-source image processing library available. Supports many common formats (png, jpeg, tiff, pdf, etc) and manipulations (rotate, scale, crop, trim, flip, blur, etc). All operations are vectorized via the Magick++ STL meaning they operate either on a single frame or a series of frames for working with layers, collages, or animation. In RStudio images are automatically previewed when printed to the console, resulting in an interactive editing environment. The latest version of the package includes a native graphics device for creating in-memory graphics or drawing onto images using pixel coordinates.
#> 162 Prior to gaining full access to health datasets, explore publicly available metadata and map metadata onto predefined research domains. This package uses structural metadata files downloaded from the Health Data Research Gateway (https://healthdatagateway.org/en). In theory, any metadata file with the same structure as the files downloaded from this gateway can be used with this package, but the package has been developed and tested on metadata files from this gateway only.
#> 163 Enables preparation of maps to be printed and drawn on. Modified maps can then be scanned back in, and hand-drawn marks converted to spatial objects.
#> 164 'BEAST2' (<https://www.beast2.org>) is a widely used Bayesian phylogenetic tool, that uses DNA/RNA/protein data and many model priors to create a posterior of jointly estimated phylogenies and parameters. 'BEAST2' is commonly accompanied by 'BEAUti 2' (<https://www.beast2.org>), which, among others, allows one to install 'BEAST2' package. This package allows to work with 'BEAST2' packages from 'R'.
#> 165 This package has four main functions: 1) download the Manitoba Original Survey Legal Descriptions data set; 2) find the coordinates of a quarter sections given the legal land description (e.g., "NE-11-33-29W"); 3) find the legal land description using coordinates (lat and long); and 4) plot these points on a map.
#> 166 'BEAST2' (<https://www.beast2.org>) is a widely used Bayesian phylogenetic tool, that uses DNA/RNA/protein data and many model priors to create a posterior of jointly estimated phylogenies and parameters. 'mcbette' allows to do a Bayesian model comparison over some site and clock models, using 'babette' (<https://github.com/ropensci/babette/>).
#> 167 A complete toolkit for processing the Munich ChronoType Questionnaire (MCTQ) in its three versions: standard, micro, and shift. The MCTQ is a quantitative and validated tool used to assess chronotypes based on individuals' sleep behavior. It was originally presented by Till Roenneberg, Anna Wirz-Justice, and Martha Merrow in 2003 (2003, <doi:10.1177/0748730402239679>).
#> 168 An increasingly important source of health-related bibliographic content are preprints - preliminary versions of research articles that have yet to undergo peer review. The two preprint repositories most relevant to health-related sciences are medRxiv <https://www.medrxiv.org/> and bioRxiv <https://www.biorxiv.org/>, both of which are operated by the Cold Spring Harbor Laboratory. 'medrxivr' provides programmatic access to the 'Cold Spring Harbour Laboratory (CSHL)' API <https://api.biorxiv.org/>, allowing users to easily download medRxiv and bioRxiv preprint metadata (e.g. title, abstract, publication date, author list, etc) into R. 'medrxivr' also provides functions to search the downloaded preprint records using regular expressions and Boolean logic, as well as helper functions that allow users to export their search results to a .BIB file for easy import to a reference manager and to download the full-text PDFs of preprints matching their search criteria.
#> 169 Performs multiple empirical likelihood tests. It offers an easy-to-use interface and flexibility in specifying hypotheses and calibration methods, extending the framework to simultaneous inferences. The core computational routines are implemented using the 'Eigen' 'C++' library and 'RcppEigen' interface, with 'OpenMP' for parallel computation. Details of the testing procedures are provided in Kim, MacEachern, and Peruggia (2023) <doi:10.1080/10485252.2023.2206919>. A companion paper by Kim, MacEachern, and Peruggia (2024) <doi:10.18637/jss.v108.i05> is available for further information. This work was supported by the U.S. National Science Foundation under Grants No. SES-1921523 and DMS-2015552.
#> 170 Allows automating the creation of time series of rasters derived from MODIS satellite land products data. It performs several typical preprocessing steps such as download, mosaicking, reprojecting and resizing data acquired on a specified time period. All processing parameters can be set using a user-friendly GUI. Users can select which layers of the original MODIS HDF files they want to process, which additional quality indicators should be extracted from aggregated MODIS quality assurance layers and, in the case of surface reflectance products, which spectral indexes should be computed from the original reflectance bands. For each output layer, outputs are saved as single-band raster files corresponding to each available acquisition date. Virtual files allowing access to the entire time series as a single file are also created. Command-line execution exploiting a previously saved processing options file is also possible, allowing users to automatically update time series related to a MODIS product whenever a new image is available. For additional documentation refer to the following article: Busetto and Ranghetti (2016) <doi:10.1016/j.cageo.2016.08.020>.
#> 171 Explore and retrieve marine geospatial data from the Marine Regions Gazetteer <https://marineregions.org/gazetteer.php?p=webservices> and the Marine Regions Data Products <https://marineregions.org/webservices.php>.
#> 172 Use morphological image processing and edge detection algorithms to automatically measure tree ring widths on digital images. Users can also manually mark tree rings on species with complex anatomical structures. The arcs of inner-rings and angles of successive inclined ring boundaries are used to correct ring-width series. The package provides a Shiny-based application, allowing R beginners to easily analyze tree ring images and export ring-width series in standard file formats.
#> 173 A set of convenience functions as well as geographical/political data about Nigeria, aimed at simplifying work with data and information that are specific to the country.
#> 174 An API client for NASA POWER global meteorology, surface solar energy and climatology data API. POWER (Prediction Of Worldwide Energy Resources) data are freely available for download with varying spatial resolutions dependent on the original data and with several temporal resolutions depending on the POWER parameter and community. This work is funded through the NASA Earth Science Directorate Applied Science Program. For more on the data themselves, the methodologies used in creating, a web- based data viewer and web access, please see <https://power.larc.nasa.gov/>.
#> 175 NOTE: This package is deprecated. Please use the neotoma2 package described at https://github.com/NeotomaDB/neotoma2. Access paleoecological datasets from the Neotoma Paleoecological Database using the published API (<http://wnapi.neotomadb.org/>), only containing datasets uploaded prior to June 2020. The functions in this package access various pre-built API functions and attempt to return the results from Neotoma in a usable format for researchers and the public.
#> 176 Provides neutral landscape models (<doi:10.1007/BF02275262>, <http://sci-hub.tw/10.1007/bf02275262>). Neutral landscape models range from "hard" neutral models (completely random distributed), to "soft" neutral models (definable spatial characteristics) and generate landscape patterns that are independent of ecological processes. Thus, these patterns can be used as null models in landscape ecology. 'NLMR' combines a large number of algorithms from other published software for simulating neutral landscapes. The simulation results are obtained in a spatial data format (raster* objects from the 'raster' package) and can, therefore, be used in any sort of raster data operation that is performed with standard observation data.
#> 177 Setup, run and analyze 'NetLogo' (<https://ccl.northwestern.edu/netlogo/>) model simulations in 'R'. 'nlrx' experiments use a similar structure as 'NetLogos' Behavior Space experiments. However, 'nlrx' offers more flexibility and additional tools for running and analyzing complex simulation designs and sensitivity analyses. The user defines all information that is needed in an intuitive framework, using class objects. Experiments are submitted from 'R' to 'NetLogo' via 'XML' files that are dynamically written, based on specifications defined by the user. By nesting model calls in future environments, large simulation design with many runs can be executed in parallel. This also enables simulating 'NetLogo' experiments on remote high performance computing machines. In order to use this package, 'Java' and 'NetLogo' (>= 5.3.1) need to be available on the executing system.
#> 178 Simplified JSON document database access and manipulation, providing a common API across supported 'NoSQL' databases 'Elasticsearch', 'CouchDB', 'MongoDB' as well as 'SQLite/JSON1', 'PostgreSQL', and 'DuckDB'.
#> 179 Access UK official statistics from the 'Nomis' database. 'Nomis' includes data from the Census, the Labour Force Survey, DWP benefit statistics and other economic and demographic data from the Office for National Statistics, based around statistical geographies. See <https://www.nomisweb.co.uk/api/v01/help> for full API documentation.
#> 180 Access the United States National Provider Identifier Registry API <https://npiregistry.cms.hhs.gov/api/>. Obtain and transform administrative data linked to a specific individual or organizational healthcare provider, or perform advanced searches based on provider name, location, type of service, credentials, and other attributes exposed by the API.
#> 181 Motivated by changing administrative boundaries over time, the 'nuts' package can convert European regional data with NUTS codes between versions (2006, 2010, 2013, 2016 and 2021) and levels (NUTS 1, NUTS 2 and NUTS 3). The package uses spatial interpolation as in Lam (1983) <doi:10.1559/152304083783914958> based on granular (100m x 100m) area, population and land use data provided by the European Commission's Joint Research Center.
#> 182 A general purpose client to work with any 'OAI-PMH' (Open Archives Initiative Protocol for 'Metadata' Harvesting) service. The 'OAI-PMH' protocol is described at <http://www.openarchives.org/OAI/openarchivesprotocol.html>. Functions are provided to work with the 'OAI-PMH' verbs: 'GetRecord', 'Identify', 'ListIdentifiers', 'ListMetadataFormats', 'ListRecords', and 'ListSets'.
#> 183 Facilitates the gathering of biodiversity occurrence data from disparate sources. Metadata is managed throughout the process to facilitate reporting and enhanced ability to repeat analyses.
#> 184 Facilitates the automatic detection of acoustic signals, providing functions to diagnose and optimize the performance of detection routines. Detections from other software can also be explored and optimized. This package has been peer-reviewed by rOpenSci. Araya-Salas et al. (2022) <doi:10.1101/2022.12.13.520253>.
#> 185 The 1000 Plants Initiative (www.onekp.com) has sequenced the transcriptomes of over 1000 plant species. This package allows these sequences and metadata to be retrieved and filtered by code, species or recursively by clade. Scientific names and NCBI taxonomy IDs are both supported.
#> 186 A set of tools to extract bibliographic content from 'OpenAlex' database using API <https://docs.openalex.org>.
#> 187 Geocode with the OpenCage API, either from place name to longitude and latitude (forward geocoding) or from longitude and latitude to the name and address of a location (reverse geocoding), see <https://opencagedata.com>.
#> 188 Exposes some of the available 'OpenCV' <https://opencv.org/> algorithms, such as a QR code scanner, and edge, body or face detection. These can either be applied to analyze static images, or to filter live video footage from a camera device.
#> 189 Setup and connect to 'OpenTripPlanner' (OTP) <http://www.opentripplanner.org/>. OTP is an open source platform for multi-modal and multi-agency journey planning written in 'Java'. The package allows you to manage a local version or connect to remote OTP server to find walking, cycling, driving, or transit routes. This package has been peer-reviewed by rOpenSci (v. 0.2.0.0).
#> 190 An interface for interacting with 'OSF' (<https://osf.io>). 'osfr' enables you to access open research materials and data, or create and manage your own private or public projects.
#> 191 Interface to 'OpenStreetMap API' for fetching and saving data from/to the 'OpenStreetMap' database (<https://wiki.openstreetmap.org/wiki/API_v0.6>).
#> 192 Download and import of 'OpenStreetMap' ('OSM') data as 'sf' or 'sp' objects. 'OSM' data are extracted from the 'Overpass' web server (<https://overpass-api.de/>) and processed with very fast 'C++' routines for return to 'R'.
#> 193 Match, download, convert and import Open Street Map data extracts obtained from several providers.
#> 194 Bespoke images of 'OpenStreetMap' ('OSM') data and data visualisation using 'OSM' objects.
#> 195 Standardized survey outcome rate functions, including the response rate, contact rate, cooperation rate, and refusal rate. These outcome rates allow survey researchers to measure the quality of survey data using definitions published by the American Association of Public Opinion Research (AAPOR). For details on these standards, see AAPOR (2016) <https://www.aapor.org/Standards-Ethics/Standard-Definitions-(1).aspx>.
#> 196 Includes functions to wrap most endpoints of the 'PaleobioDB' API and functions to visualize and process the fossil data. The API documentation for the Paleobiology Database can be found at <https://paleobiodb.org/data1.2/>.
#> 197 Tools to interact with the 'Pangaea' Database (<https://www.pangaea.de>), including functions for searching for data, fetching 'datasets' by 'dataset' 'ID', and working with the 'Pangaea' 'OAI-PMH' service.
#> 198 Provides access to word predictability estimates using large language models (LLMs) based on 'transformer' architectures via integration with the 'Hugging Face' ecosystem <https://huggingface.co/>. The package interfaces with pre-trained neural networks and supports both causal/auto-regressive LLMs (e.g., 'GPT-2') and masked/bidirectional LLMs (e.g., 'BERT') to compute the probability of words, phrases, or tokens given their linguistic context. For details on GPT-2 and causal models, see Radford et al. (2019) <https://storage.prod.researchhub.com/uploads/papers/2020/06/01/language-models.pdf>, for details on BERT and masked models, see Devlin et al. (2019) <doi:10.48550/arXiv.1810.04805>. By enabling a straightforward estimation of word predictability, the package facilitates research in psycholinguistics, computational linguistics, and natural language processing (NLP).
#> 199 Parse messy geographic coordinates from various character formats to decimal degree numeric values. Parse coordinates into their parts (degree, minutes, seconds); calculate hemisphere from coordinates; pull out individually degrees, minutes, or seconds; add and subtract degrees, minutes, and seconds. C++ code herein originally inspired from code written by Jeffrey D. Bogan, but then completely re-written.
#> 200 Provides functions to simplify the 'PatentsView' API (<https://patentsview.org/apis/purpose>) query language, send GET and POST requests to the API's twenty seven endpoints, and parse the data that comes back.
#> 201 Tools to import, clean, and visualize movement data, particularly from motion capture systems such as Optitrack's 'Motive', the Straw Lab's 'Flydra', or from other sources. We provide functions to remove artifacts, standardize tunnel position and tunnel axes, select a region of interest, isolate specific trajectories, fill gaps in trajectory data, and calculate 3D and per-axis velocity. For experiments of visual guidance, we also provide functions that use subject position to estimate perception of visual stimuli.
#> 202 Utilities based on 'libpoppler' <https://poppler.freedesktop.org> for extracting text, fonts, attachments and metadata from a PDF file. Also supports high quality rendering of PDF documents into PNG, JPEG, TIFF format, or into raw bitmap vectors for further processing in R.
#> 203 There are a lot of different typical tasks that have to be solved during phonetic research and experiments. This includes creating a presentation that will contain all stimuli, renaming and concatenating multiple sound files recorded during a session, automatic annotation in 'Praat' TextGrids (this is one of the sound annotation standards provided by 'Praat' software, see Boersma & Weenink 2020 <https://www.fon.hum.uva.nl/praat/>), creating an html table with annotations and spectrograms, and converting multiple formats ('Praat' TextGrid, 'ELAN', 'EXMARaLDA', 'Audacity', subtitles '.srt', and 'FLEx' flextext). All of these tasks can be solved by a mixture of different tools (any programming language has programs for automatic renaming, and Praat contains scripts for concatenating and renaming files, etc.). 'phonfieldwork' provides a functionality that will make it easier to solve those tasks independently of any additional tools. You can also compare the functionality with other packages: 'rPraat' <https://CRAN.R-project.org/package=rPraat>, 'textgRid' <https://CRAN.R-project.org/package=textgRid>.
#> 204 Queries the Flick API (https://www.flickr.com/services/api/) to return photograph metadata as well as the ability to download the images as jpegs.
#> 205 The phruta R package is designed to simplify the basic phylogenetic pipeline. Specifically, all code is run within the same program and data from intermediate steps are saved in independent folders. Furthermore, all code is run within the same environment which increases the reproducibility of your analysis. phruta retrieves gene sequences, combines newly downloaded and local gene sequences, and performs sequence alignments.
#> 206 Interface to 'Phylocom' (<https://phylodiversity.net/phylocom/>), a library for analysis of 'phylogenetic' community structure and character evolution. Includes low level methods for interacting with the three executables, as well as higher level interfaces for methods like 'aot', 'ecovolve', 'bladj', 'phylomatic', and more.
#> 207 Contains functions for developing phylogenetic trees as deeply-nested lists ("dendrogram" objects). Enables bi-directional conversion between dendrogram and "phylo" objects (see Paradis et al (2004) <doi:10.1093/bioinformatics/btg412>), and features several tools for command-line tree manipulation and import/export via Newick parenthetic text.
#> 208 A pipeline for the identification, within taxonomic groups, of orthologous sequence clusters from 'GenBank' <https://www.ncbi.nlm.nih.gov/genbank/> as the first step in a phylogenetic analysis. The pipeline depends on a local alignment search tool and is, therefore, not dependent on differences in gene naming conventions and naming errors.
#> 209 Helps store files as GitHub release assets, which is a convenient way for large/binary data files to piggyback onto public and private GitHub repositories. Includes functions for file downloads, uploads, and managing releases via the GitHub API.
#> 210 Contains functions to classify the pixels of an image file (jpeg or tiff) by its colour. It implements a simple form of the techniques known as Support Vector Machine adapted to this particular problem.
#> 211 Tools for interacting with data from experiments done in microtiter plates. Easily read in plate-shaped data and convert it to tidy format, combine plate-shaped data with tidy data, and view tidy data in plate shape.
#> 212 Browse and query the popler database.
#> 213 Free UK geocoding using data from Office for National Statistics. It is using several functions to get information about post codes, outward codes, reverse geocoding, nearest post codes/outward codes, validation, or randomly generate a post code. API wrapper around <https://postcodes.io>.
#> 214 Generates simple and beautiful one-page HTML reference manuals with package documentation. Math rendering and syntax highlighting are done server-side in R such that no JavaScript libraries are needed in the browser, which makes the documentation portable and fast to load.
#> 215 Estimates when and where a model-guided treatment strategy may outperform a treat-all or treat-none approach by Monte Carlo simulation and evaluation of the Net Monetary Benefit. Details can be viewed in Parsons et al. (2023) <doi:10.21105/joss.05328>.
#> 216 Allows users to access the Oregon State Prism climate data (<https://prism.nacse.org/>). Using the web service API data can easily downloaded in bulk and loaded into R for spatial analysis. Some user friendly visualizations are also provided.
#> 217 Prism <https://prismjs.com/> is a lightweight, extensible syntax highlighter, built with modern web standards in mind. This package provides server-side rendering in R using 'V8' such that no JavaScript library is required in the resulting HTML documents. Over 400 languages are supported.
#> 218 Content-preserving transformations transformations of PDF files such as split, combine, and compress. This package interfaces directly to the 'qpdf' C++ library <https://qpdf.sourceforge.io/> and does not require any command line utilities. Note that 'qpdf' does not read actual content from PDF files: to extract text and data you need the 'pdftools' package.
#> 219 A set of functions of increasing complexity allows users to (1) convert QuadKey-identified datasets, based on 'Microsoft's Bing Maps Tile System', into Simple Features data frames, (2) transform Simple Features data frames into rasters, and (3) process multiple 'Meta' ('Facebook') QuadKey-identified human mobility files directly into raster files. For more details, see D’Andrea et al. (2024) <doi:10.21105/joss.06500>.
#> 220 It includes test for multivariate normality, test for uniformity on the d-dimensional Sphere, non-parametric two- and k-sample tests, random generation of points from the Poisson kernel-based density and clustering algorithm for spherical data. For more information see Saraceno G., Markatou M., Mukhopadhyay R. and Golzy M. (2024) <doi:10.48550/arXiv.2402.02290> Markatou, M. and Saraceno, G. (2024) <doi:10.48550/arXiv.2407.16374>, Ding, Y., Markatou, M. and Saraceno, G. (2023) <doi:10.5705/ss.202022.0347>, and Golzy, M. and Markatou, M. (2020) <doi:10.1080/10618600.2020.1740713>.
#> 221 A package to download information from CETESB QUALAR <https://cetesb.sp.gov.br/ar/qualar/> and MonitorAr <http://jeap.rio.rj.gov.br/je-metinfosmac/institucional/index.html> systems. It contains function to download different parameters, a set of criteria pollutants and the most frequent meteorological parameters used in air quality data analysis and air quality model evaluation.
#> 222 Provides functions to access survey results directly into R using the 'Qualtrics' API. 'Qualtrics' <https://www.qualtrics.com/about/> is an online survey and data collection software platform. See <https://api.qualtrics.com/> for more information about the 'Qualtrics' API. This package is community-maintained and is not officially supported by 'Qualtrics'.
#> 223 Contains functions to download, cache and read in 'Excel' version of the RAM Legacy Stock Assessment Data Base, an online compilation of stock assessment results for commercially exploited marine populations from around the world. The database is named after Dr. Ransom A. Myers whose original stock-recruitment database, is no longer being updated. More information about the database can be found at <https://ramlegacy.org/>. Ricard, D., Minto, C., Jensen, O.P. and Baum, J.K. (2012) <doi:10.1111/j.1467-2979.2011.00435.x>.
#> 224 Integrates population dynamics and dispersal into a mechanistic virtual species simulator. The package can be used to study the effects of environmental change on population growth and range shifts. It allows for simple and straightforward definition of population dynamics (including positive density dependence), extensive possibilities for defining dispersal kernels, and the ability to generate virtual ecologist data. Learn more about the 'rangr' at <https://docs.ropensci.org/rangr/>.
#> 225 Download and parse public files released by B3 and convert them into useful formats and data structures common to data analysis practitioners.
#> 226 A programmatic interface to the Species+ <https://speciesplus.net/> database via the Species+/CITES Checklist API <https://api.speciesplus.net/>.
#> 227 Client for various 'CrossRef' 'APIs', including 'metadata' search with their old and newer search 'APIs', get 'citations' in various formats (including 'bibtex', 'citeproc-json', 'rdf-xml', etc.), convert 'DOIs' to 'PMIDs', and 'vice versa', get citations for 'DOIs', and get links to full text of articles when available.
#> 228 Client for the web service methods provided by 'DataCite' (<https://www.datacite.org/>), including functions to interface with their 'RESTful' search API. The API is backed by 'Elasticsearch', allowing expressive queries, including faceting.
#> 229 Provides an R interface to the Data Retriever <https://retriever.readthedocs.io/en/latest/> via the Data Retriever's command line interface. The Data Retriever automates the tasks of finding, downloading, and cleaning public datasets, and then stores them in a local database.
#> 230 The Resource Description Framework, or 'RDF' is a widely used data representation model that forms the cornerstone of the Semantic Web. 'RDF' represents data as a graph rather than the familiar data table or rectangle of relational databases. The 'rdflib' package provides a friendly and concise user interface for performing common tasks on 'RDF' data, such as reading, writing and converting between the various serializations of 'RDF' data, including 'rdfxml', 'turtle', 'nquads', 'ntriples', and 'json-ld'; creating new 'RDF' graphs, and performing graph queries using 'SPARQL'. This package wraps the low level 'redland' R package which provides direct bindings to the 'redland' C library. Additionally, the package supports the newer and more developer friendly 'JSON-LD' format through the 'jsonld' package. The package interface takes inspiration from the Python 'rdflib' library.
#> 231 Provides a client for (1) querying the DHS API for survey indicators and metadata (<https://api.dhsprogram.com/#/index.html>), (2) identifying surveys and datasets for analysis, (3) downloading survey datasets from the DHS website, (4) loading datasets and associate metadata into R, and (5) extracting variables and combining datasets for pooled analysis.
#> 232 Interface to the Dryad "Solr" API, their "OAI-PMH" service, and fetch datasets. Dryad (<https://datadryad.org/>) is a curated host of data underlying scientific publications.
#> 233 Read ODS (OpenDocument Spreadsheet) into R as data frame. Also support writing data frame into ODS file.
#> 234 A programmatic client for the eBird database (<https://ebird.org/home>), including functions for searching for bird observations by geographic location (latitude, longitude), eBird hotspots, location identifiers, by notable sightings, by region, and by taxonomic name.
#> 235 Provides tools for importing and working with bibliographic references. It greatly enhances the 'bibentry' class by providing a class 'BibEntry' which stores 'BibTeX' and 'BibLaTeX' references, supports 'UTF-8' encoding, and can be easily searched by any field, by date ranges, and by various formats for name lists (author by last names, translator by full names, etc.). Entries can be updated, combined, sorted, printed in a number of styles, and exported. 'BibTeX' and 'BibLaTeX' '.bib' files can be read into 'R' and converted to 'BibEntry' objects. Interfaces to 'NCBI Entrez', 'CrossRef', and 'Zotero' are provided for importing references and references can be created from locally stored 'PDF' files using 'Poppler'. Includes functions for citing and generating a bibliography with hyperlinks for documents prepared with 'RMarkdown' or 'RHTML'.
#> 236 Tools to parse and organize reference records downloaded from the 'Web of Science' citation database into an R-friendly format, disambiguate the names of authors, geocode their locations, and generate/visualize coauthorship networks. This package has been peer-reviewed by rOpenSci (v. 1.0).
#> 237 ReLTER provides access to DEIMS-SDR (https://deims.org/), and allows interaction with data and software implemented by eLTER Research Infrastructure (RI) thus improving data sharing among European LTER projects. ReLTER uses the R language to access and interact with the DEIMS-SDR archive of information shared by the Long Term Ecological Research (LTER) network. This package grew within eLTER H2020 as a major project that will help advance the development of European Long-Term Ecosystem Research Infrastructures (eLTER RI - https://elter-ri.eu). The ReLTER package functions in particular allow to: - retrieve the information about entities (e.g. sites, datasets, and activities) shared by DEIMS-SDR (see e.g. get_site_info function); - interact with the [ODSEurope](maps.opendatascience.eu) starting with the dataset shared by [DEIMS-SDR](https://deims.org/) (see e.g. [get_site_ODS](https://docs.ropensci.org/ReLTER/reference/get_site_ODS.html) function); - use the eLTER site informations to download and crop geospatial data from other platforms (see e.g. get_site_ODS function); - improve the quality of the dataset (see e.g. get_id_worms). Functions currently implemented are derived from discussions of the needs among the eLTER users community. The ReLTER package will continue to follow the progress of eLTER-RI and evolve, adding new tools and improvements as required.
#> 238 Provides an R interface to the NCBI's 'EUtils' API, allowing users to search databases like 'GenBank' <https://www.ncbi.nlm.nih.gov/genbank/> and 'PubMed' <https://pubmed.ncbi.nlm.nih.gov/>, process the results of those searches and pull data into their R sessions.
#> 239 General purpose R client for 'ERDDAP™' servers. Includes functions to search for 'datasets', get summary information on 'datasets', and fetch 'datasets', in either 'csv' or 'netCDF' format. 'ERDDAP™' information: <https://upwell.pfeg.noaa.gov/erddap/information.html>.
#> 240 Download large sections of 'GenBank' <https://www.ncbi.nlm.nih.gov/genbank/> and generate a local SQL-based database. A user can then query this database using 'restez' functions or through 'rentrez' <https://CRAN.R-project.org/package=rentrez> wrappers.
#> 241 `rfema` allows users to access The Federal Emergency Management Agency's (FEMA) publicly available data through their API. The package provides a set of functions to easily navigate and access data from the National Flood Insurance Program along with FEMA's various disaster aid programs, including the Hazard Mitigation Grant Program, the Public Assistance Grant Program, and the Individual Assistance Grant Program.
#> 242 A programmatic interface to 'FishBase', re-written based on an accompanying 'RESTful' API. Access tables describing over 30,000 species of fish, their biology, ecology, morphology, and more. This package also supports experimental access to 'SeaLifeBase' data, which contains nearly 200,000 species records for all types of aquatic life not covered by 'FishBase.'
#> 243 A programmatic interface to 'openfisheries.org'. This package is part of the 'rOpenSci' suite (https://ropensci.org).
#> 244 A programmatic interface to the Web Service methods provided by the Global Biodiversity Information Facility (GBIF; <https://www.gbif.org/developer/summary>). GBIF is a database of species occurrence records from sources all over the globe. rgbif includes functions for searching for taxonomic names, retrieving information on data providers, getting species occurrence records, getting counts of occurrence records, and using the GBIF tile map service to make rasters summarizing huge amounts of data.
#> 245 A programmatic interface to the web service methods provided by Global Biotic Interactions (GloBI) (<https://www.globalbioticinteractions.org/>). GloBI provides access to spatial-temporal species interaction records from sources all over the world. rglobi provides methods to search species interactions by location, interaction type, and taxonomic name.
#> 246 Parse scientific names using 'gnparser' (<https://github.com/gnames/gnparser>), written in Go. 'gnparser' parses scientific names into their component parts; it utilizes a Parsing Expression Grammar specifically for scientific names.
#> 247 R Interface to the Global Population Dynamics Database (<https://ecologicaldata.org/wiki/global-population-dynamics-database>)
#> 248 Allows to get weather data from Automated Surface Observing System (ASOS) stations (airports) in the whole world thanks to the Iowa Environment Mesonet website.
#> 249 A programmatic interface to the API provided by the 'iNaturalist' website <https://www.inaturalist.org/> to download species occurrence data submitted by citizen scientists.
#> 250 An interface to the Integrated Taxonomic Information System ('ITIS') (<https://www.itis.gov>). Includes functions to work with the 'ITIS' REST API methods (<https://www.itis.gov/ws_description.html>), as well as the 'Solr' web service (<https://www.itis.gov/solr_documentation.html>).
#> 251 Simplifies the creation of reproducible data science environments using the 'Nix' package manager, as described in Dolstra (2006) <ISBN 90-393-4130-3>. The included `rix()` function generates a complete description of the environment as a `default.nix` file, which can then be built using 'Nix'. This results in project specific software environments with pinned versions of R, packages, linked system dependencies, and other tools or programming languages such as Python or Julia. Additional helpers make it easy to run R code in 'Nix' software environments for testing and production.
#> 252 An interface to the 'Mangal' database - a collection of ecological networks. This package includes functions to work with the 'Mangal RESTful API' methods (<https://mangal-interactions.github.io/mangal-api/>).
#> 253 Interface to access data via the United States Department of Agriculture's National Agricultural Statistical Service (NASS) 'Quick Stats' web API <https://quickstats.nass.usda.gov/api/>. Convenience functions facilitate building queries based on available parameters and valid parameter values. This product uses the NASS API but is not endorsed or certified by NASS.
#> 254 Facilitates mapping by making natural earth map data from <https://www.naturalearthdata.com/> more easily available to R users.
#> 255 Vector map data from <https://www.naturalearthdata.com/>. Access functions are provided in the accompanying package 'rnaturalearth'.
#> 256 Facilitates mapping by making natural earth map data from http:// www.naturalearthdata.com/ more easily available to R users. Focuses on vector data.
#> 257 Provides access to phyloinformatic data in 'NeXML' format. The package should add new functionality to R such as the possibility to manipulate 'NeXML' objects in more various and refined way and compatibility with 'ape' objects.
#> 258 This web client interfaces Unpaywall <https://unpaywall.org/products/api>, formerly oaDOI, a service finding free full-texts of academic papers by linking DOIs with open access journals and repositories. It provides unified access to various data sources for open access full-text links including Crossref and the Directory of Open Access Journals (DOAJ). API usage is free and no registration is required.
#> 259 Provides functions to download and parse 'robots.txt' files. Ultimately the package makes it easy to check if bots (spiders, crawler, scrapers, ...) are allowed to access specific resources on a domain.
#> 260 The OPtical TRapezoid Model (OPTRAM) derives soil moisture based on the linear relation between a vegetation index and Land Surface Temperature (LST). The Short Wave Infra-red (SWIR) band is used as a proxy for LST. See: Sadeghi, M. et al., 2017. <https://doi.org/10.1016/j.rse.2017.05.041> .
#> 261 An interface to the 'Open Tree of Life' API to retrieve phylogenetic trees, information about studies used to assemble the synthetic tree, and utilities to match taxonomic names to 'Open Tree identifiers'. The 'Open Tree of Life' aims at assembling a comprehensive phylogenetic tree for all named species.
#> 262 The Perseus Digital Library is a collection of classical texts. This package helps you get them. The available works can also be viewed here: <http://cts.perseids.org/>.
#> 263 A polyhedra database scraped from various sources as R6 objects and 'rgl' visualizing capabilities.
#> 264 Search plant phenology data aggregated from several sources and available on the Global Plant Phenology Data Portal.
#> 265 'IUCN' Red List (<https://api.iucnredlist.org/>) client. The 'IUCN' Red List is a global list of threatened and endangered species. Functions cover all of the Red List 'API' routes. An 'API' key is required.
#> 266 Get archived data of past and current hurricanes and tropical storms for the Atlantic and eastern Pacific oceans. Data is available for storms since 1998. Datasets are updated via the rrricanesdata package. Currently, this package is about 6MB of datasets. See the README or view `vignette("drat")` for more information.
#> 267 Includes storm discussions, forecast/advisories, public advisories, wind speed probabilities, strike probabilities and more. This package can be used along with rrricanes (>= 0.2.0-6). Data is considered public domain via the National Hurricane Center.
#> 268 Downloading, customizing, and processing time series of satellite images for a region of interest. 'rsat' functions allow a unified access to multispectral images from Landsat, MODIS and Sentinel repositories. 'rsat' also offers capabilities for customizing satellite images, such as tile mosaicking, image cropping and new variables computation. Finally, 'rsat' covers the processing, including cloud masking, compositing and gap-filling/smoothing time series of images (Militino et al., 2018 <doi:10.3390/rs10030398> and Militino et al., 2019 <doi:10.1109/TGRS.2019.2904193>).
#> 269 Provides a set of R bindings for the 'Selenium 2.0 WebDriver' (see <https://www.selenium.dev/documentation/> for more information) using the 'JsonWireProtocol' (see <https://github.com/SeleniumHQ/selenium/wiki/JsonWireProtocol> for more information). 'Selenium 2.0 WebDriver' allows driving a web browser natively as a user would either locally or on a remote machine using the Selenium server it marks a leap forward in terms of web browser automation. Selenium automates web browsers (commonly referred to as browsers). Using RSelenium you can automate browsers locally or remotely.
#> 270 A programmatic interface to various 'SNP' 'datasets' on the web: 'OpenSNP' (<https://opensnp.org>), and 'NBCIs' 'dbSNP' database (<https://www.ncbi.nlm.nih.gov/projects/SNP/>). Functions are included for searching for 'NCBI'. For 'OpenSNP', functions are included for getting 'SNPs', and data for 'genotypes', 'phenotypes', annotations, and bulk downloads of data by user.
#> 271 Renders vector-based svg images into high-quality custom-size bitmap arrays using 'librsvg2'. The resulting bitmap can be written to e.g. png, jpeg or webp format. In addition, the package can convert images directly to various formats such as pdf or postscript.
#> 272 Extract text or metadata from over a thousand file types, using Apache Tika <https://tika.apache.org/>. Get either plain text or structured XHTML content.
#> 273 Access and tidy up data from the 'ODK Central' API. 'ODK Central' is a clearinghouse for digitally captured data using ODK <https://docs.getodk.org/central-intro/>. It manages user accounts and permissions, stores form definitions, and allows data collection clients like 'ODK Collect' to connect to it for form download and submission upload. The 'ODK Central' API is documented at <https://docs.getodk.org/central-api/>.
#> 274 An interface to the web service methods provided by the United States Department of Agriculture (USDA). The Agricultural Research Service (ARS) provides a large set of databases. The current version of the package holds interfaces to the Systematic Mycology and Microbiology Laboratory (SMML), which consists of four databases: Fungus-Host Distributions, Specimens, Literature and the Nomenclature database. It provides functions for querying these databases. The main function is \\codeassociations, which allows searching for fungus-host combinations.
#> 275 Retrieve, map and summarize data from the 'VertNet.org' archives (<https://vertnet.org/>). Functions allow searching by many parameters, including 'taxonomic' names, places, and dates. In addition, there is an interface for conducting spatially delimited searches, and another for requesting large 'datasets' via email.
#> 276 Interface to the 'ZeroMQ' lightweight messaging kernel (see <https://zeromq.org/> for more information).
#> 277 A simple to use summary function that can be used with pipes and displays nicely in the console. The default summary statistics may be modified by the user as can the default formatting. Support for data frames and vectors is included, and users can implement their own skim methods for specific object types as described in a vignette. Default summaries include support for inline spark graphs. Instructions for managing these on specific operating systems are given in the "Using skimr" vignette and the README.
#> 278 A flexible tool that allows generating bespoke air transport statistics for urban studies based on publicly available data from the Bureau of Transport Statistics (BTS) in the United States <https://www.transtats.bts.gov/databases.asp?Z1qr_VQ=E&Z1qr_Qr5p=N8vn6v10&f7owrp6_VQF=D>.
#> 279 Functions and example data to support research into the slope (also known as longitudinal gradient or steepness) of linear geographic entities such as roads <doi:10.1038/s41597-019-0147-x> and rivers <doi:10.1016/j.jhydrol.2018.06.066>. The package was initially developed to calculate the steepness of street segments but can be used to calculate steepness of any linear feature that can be represented as LINESTRING geometries in the 'sf' class system. The package takes two main types of input data for slope calculation: vector geographic objects representing linear features, and raster geographic objects with elevation values (which can be downloaded using functionality in the package) representing a continuous terrain surface. Where no raster object is provided the package attempts to download elevation data using the 'ceramic' package.
#> 280 Facilitates programmatic access to NASA Soil Moisture Active Passive (SMAP) data with R. It includes functions to search for, acquire, and extract SMAP data.
#> 281 Provides an interface to the 'NoSQL' database 'CouchDB' (<http://couchdb.apache.org>). Methods are provided for managing databases within 'CouchDB', including creating/deleting/updating/transferring, and managing documents within databases. One can connect with a local 'CouchDB' instance, or a remote 'CouchDB' databases such as 'Cloudant'. Documents can be inserted directly from vectors, lists, data.frames, and 'JSON'. Targeted at 'CouchDB' v2 or greater.
#> 282 Detects spatial and temporal groups in GPS relocations (Robitaille et al. (2019) <doi:10.1111/2041-210X.13215>). It can be used to convert GPS relocations to gambit-of-the-group format to build proximity-based social networks In addition, the randomizations function provides data-stream randomization methods suitable for GPS data.
#> 283 Spell checking common document formats including latex, markdown, manual pages, and description files. Includes utilities to automate checking of documentation and vignettes as a unit test during 'R CMD check'. Both British and American English are supported out of the box and other languages can be added. In addition, packages may define a 'wordlist' to allow custom terminology without having to abuse punctuation.
#> 284 Import, process, summarize and visualize raw data from metabolic carts. See Robergs, Dwyer, and Astorino (2010) <doi:10.2165/11319670-000000000-00000> for more details on data processing.
#> 285 A programmatic interface to many species occurrence data sources, including Global Biodiversity Information Facility ('GBIF'), 'iNaturalist', 'eBird', Integrated Digitized 'Biocollections' ('iDigBio'), 'VertNet', Ocean 'Biogeographic' Information System ('OBIS'), and Atlas of Living Australia ('ALA'). Includes functionality for retrieving species occurrence data, and combining those data.
#> 286 Connect to a remote server over SSH to transfer files via SCP, setup a secure tunnel, or run a command or script on the host while streaming stdout and stderr directly to the client.
#> 287 Bayesian data analysis usually incurs long runtimes and cumbersome custom code. A pipeline toolkit tailored to Bayesian statisticians, the 'stantargets' R package leverages 'targets' and 'cmdstanr' to ease these burdens. 'stantargets' makes it super easy to set up scalable Stan pipelines that automatically parallelize the computation and skip expensive steps when the results are already up to date. Minimal custom code is required, and there is no need to manually configure branching, so usage is much easier than 'targets' alone. 'stantargets' can access all of 'cmdstanr''s major algorithms (MCMC, variational Bayes, and optimization) and it supports both single-fit workflows and multi-rep simulation studies. For the statistical methodology, please refer to 'Stan' documentation (Stan Development Team 2020) <https://mc-stan.org/>.
#> 288 Tools to help download, process and analyse the UK road collision data collected using the 'STATS19' form. The datasets are provided as 'CSV' files with detailed road safety information about the circumstances of car crashes and other incidents on the roads resulting in casualties in Great Britain from 1979 to present. Tables are available on 'colissions' with the circumstances (e.g. speed limit of road), information about 'vehicles' involved (e.g. type of vehicle), and 'casualties' (e.g. age). The statistics relate only to events on public roads that were reported to the police, and subsequently recorded, using the 'STATS19' collision reporting form. See the Department for Transport website <https://www.data.gov.uk/dataset/cb7ae6f0-4be6-4935-9277-47e5ce24a11f/road-accidents-safety-data> for more information on these datasets. The package is described in a paper in the Journal of Open Source Software (Lovelace et al. 2019) <doi:10.21105/joss.01181>. See Gilardi et al. (2022) <doi:10.1111/rssa.12823>, Vidal-Tortosa et al. (2021) <doi:10.1016/j.jth.2021.101291>, and Tait et al. (2023) <doi:10.1016/j.aap.2022.106895> for examples of how the data can be used for methodological and empirical road safety research.
#> 289 Tools for transport planning with an emphasis on spatial transport data and non-motorized modes. The package was originally developed to support the 'Propensity to Cycle Tool', a publicly available strategic cycle network planning tool (Lovelace et al. 2017) <doi:10.5198/jtlu.2016.862>, but has since been extended to support public transport routing and accessibility analysis (Moreno-Monroy et al. 2017) <doi:10.1016/j.jtrangeo.2017.08.012> and routing with locally hosted routing engines such as 'OSRM' (Lowans et al. 2023) <doi:10.1016/j.enconman.2023.117337>. The main functions are for creating and manipulating geographic "desire lines" from origin-destination (OD) data (building on the 'od' package); calculating routes on the transport network locally and via interfaces to routing services such as <https://cyclestreets.net/> (Desjardins et al. 2021) <doi:10.1007/s11116-021-10197-1>; and calculating route segment attributes such as bearing. The package implements the 'travel flow aggregration' method described in Morgan and Lovelace (2020) <doi:10.1177/2399808320942779> and the 'OD jittering' method described in Lovelace et al. (2022) <doi:10.32866/001c.33873>. Further information on the package's aim and scope can be found in the vignettes and in a paper in the R Journal (Lovelace and Ellison 2018) <doi:10.32614/RJ-2018-053>, and in a paper outlining the landscape of open source software for geographic methods in transport planning (Lovelace, 2021) <doi:10.1007/s10109-020-00342-2>.
#> 290 Downloads data supplementary materials from manuscripts, using papers' DOIs as references. Facilitates open, reproducible research workflows: scientists re-analyzing published datasets can work with them as easily as if they were stored on their own computer, and others can track their analysis workflow painlessly. The main function suppdata() returns a (temporary) location on the user's computer where the file is stored, making it simple to use suppdata() with standard functions like read.csv().
#> 291 Download data from Symbiota2 portals using Symbiota's API. Covers the Checklists, Collections, Crowdsource, Exsiccati, Glossary, ImageProcessor, Key, Media, Occurrence, Reference, Taxa, Traits, and UserRoles API families. Each Symbiota2 portal owner can load their own plugins (and modified code), and so this package may not cover every possible API endpoint from a given Symbiota2 instance.
#> 292 Bindings for the 'Tabula' <https://tabula.technology/> 'Java' library, which can extract tables from PDF files. This tool can reduce time and effort in data extraction processes in fields like investigative journalism. It allows for automatic and manual table extraction, the latter facilitated through a 'Shiny' interface, enabling manual areas selection\\ with a computer mouse for data retrieval.
#> 293 To facilitate the analysis of positron emission tomography (PET) time activity curve (TAC) data, and to encourage open science and replicability, this package supports data loading and analysis of multiple TAC file formats. Functions are available to analyze loaded TAC data for individual participants or in batches. Major functionality includes weighted TAC merging by region of interest (ROI), calculating models including standardized uptake value ratio (SUVR) and distribution volume ratio (DVR, Logan et al. 1996 <doi:10.1097/00004647-199609000-00008>), basic plotting functions and calculation of cut-off values (Aizenstein et al. 2008 <doi:10.1001/archneur.65.11.1509>). Please see the walkthrough vignette for a detailed overview of 'tacmagic' functions.
#> 294 Function-oriented Make-like declarative pipelines for Statistics and data science are supported in the 'targets' R package. As an extension to 'targets', the 'tarchetypes' package provides convenient user-side functions to make 'targets' easier to use. By establishing reusable archetypes for common kinds of targets and pipelines, these functions help express complicated reproducible pipelines concisely and compactly. The methods in this package were influenced by the 'targets' R package. by Will Landau (2018) <doi:10.21105/joss.00550>.
#> 295 Pipeline tools coordinate the pieces of computationally demanding analysis projects. The 'targets' package is a 'Make'-like pipeline tool for statistics and data science in R. The package skips costly runtime for tasks that are already up to date, orchestrates the necessary computation with implicit parallel computing, and abstracts files as R objects. If all the current output matches the current upstream code and data, then the whole pipeline is up to date, and the results are more trustworthy than otherwise. The methodology in this package borrows from GNU 'Make' (2015, ISBN:978-9881443519) and 'drake' (2018, <doi:10.21105/joss.00550>).
#> 296 Provides classes for storing and manipulating taxonomic data. Most of the classes can be treated like base R vectors (e.g. can be used in tables as columns and can be named). Vectorized classes can store taxon names and authorities, taxon IDs from databases, taxon ranks, and other types of information. More complex classes are provided to store taxonomic trees and user-defined data associated with them.
#> 297 Creates a local database of many commonly used taxonomic authorities and provides functions that can quickly query this data.
#> 298 Interacts with a suite of web application programming interfaces (API) for taxonomic tasks, such as getting database specific taxonomic identifiers, verifying species names, getting taxonomic hierarchies, fetching downstream and upstream taxonomic names, getting taxonomic synonyms, converting scientific to common names and vice versa, and more. Some of the services supported include 'NCBI E-utilities' (<https://www.ncbi.nlm.nih.gov/books/NBK25501/>), 'Encyclopedia of Life' (<https://eol.org/docs/what-is-eol/data-services>), 'Global Biodiversity Information Facility' (<https://techdocs.gbif.org/en/openapi/>), and many more. Links to the API documentation for other supported services are available in the documentation for their respective functions in this package.
#> 299 Tools for working with 'taxonomic' databases, including utilities for downloading databases, loading them into various 'SQL' databases, cleaning up files, and providing a 'SQL' connection that can be used to do 'SQL' queries directly or used in 'dplyr'.
#> 300 Handling taxonomic lists through objects of class 'taxlist'. This package provides functions to import species lists from 'Turboveg' (<https://www.synbiosys.alterra.nl/turboveg/>) and the possibility to create backups from resulting R-objects. Also quick displays are implemented as summary-methods.
#> 301 Functions for the retrieval, manipulation, and visualization of 'geospatial' data, with an aim towards producing '3D' landscape visualizations in the 'Unity' '3D' rendering engine. Functions are also provided for retrieving elevation data and base map tiles from the 'USGS' National Map <https://apps.nationalmap.gov/services/>.
#> 302 Bindings to 'Tesseract': a powerful optical character recognition (OCR) engine that supports over 100 languages. The engine is highly configurable in order to tune the detection algorithms and obtain the best possible results.
#> 303 Tools for measuring similarity among documents and detecting passages which have been reused. Implements shingled n-gram, skip n-gram, and other tokenizers; similarity/dissimilarity functions; pairwise comparisons; minhash and locality sensitive hashing algorithms; and a version of the Smith-Waterman local alignment algorithm suitable for natural language.
#> 304 Provides a way to describe common build and deployment workflows for R-based projects: packages, websites (e.g. blogdown, pkgdown), or data processing (e.g. research compendia). The recipe is described independent of the continuous integration tool used for processing the workflow (e.g. 'GitHub Actions' or 'Circle CI'). This package has been peer-reviewed by rOpenSci (v0.3.0.9004).
#> 305 Provides functions to access historical and real-time national 'hydrometric' data from Water Survey of Canada data sources (<https://dd.weather.gc.ca/hydrometric/csv/> and <https://collaboration.cmc.ec.gc.ca/cmc/hydrometrics/www/>) and then applies tidy data principles.
#> 306 Tidy tools for 'NetCDF' data sources. Explore the contents of a 'NetCDF' source (file or URL) presented as variables organized by grid with a database-like interface. The hyper_filter() interactive function translates the filter value or index expressions to array-slicing form. No data is read until explicitly requested, as a data frame or list of arrays via hyper_tibble() or hyper_array().
#> 307 Parse XML documents from the Open Access subset of Europe PubMed Central <https://europepmc.org> including section paragraphs, tables, captions and references.
#> 308 For reproducible quantitative PCR (qPCR) analysis building on packages from the ’tidyverse’, notably ’dplyr’ and ’ggplot2’. It normalizes (by ddCq), summarizes, and plots pre-calculated Cq data, and plots raw amplification and melt curves from Roche Lightcycler (tm) machines. It does NOT (yet) calculate Cq data from amplification curves.
#> 309 Creates geographic map tiles from geospatial map files or non-geographic map tiles from simple image files. This package provides a tile generator function for creating map tile sets for use with packages such as 'leaflet'. In addition to generating map tiles based on a common raster layer source, it also handles the non-geographic edge case, producing map tiles from arbitrary images. These map tiles, which have a non-geographic, simple coordinate reference system (CRS), can also be used with 'leaflet' when applying the simple CRS option. Map tiles can be created from an input file with any of the following extensions: tif, grd and nc for spatial maps and png, jpg and bmp for basic images. This package requires 'Python' and the 'gdal' library for 'Python'. 'Windows' users are recommended to install 'OSGeo4W' (<https://trac.osgeo.org/osgeo4w/>) as an easy way to obtain the required 'gdal' support for 'Python'.
#> 310 Parsing '(R)Markdown' files with numerous regular expressions can be fraught with peril, but it does not have to be this way. Converting '(R)Markdown' files to 'XML' using the 'commonmark' package allows in-memory editing via of 'markdown' elements via 'XPath' through the extensible 'R6' class called 'yarn'. These modified 'XML' representations can be written to '(R)Markdown' documents via an 'xslt' stylesheet which implements an extended version of 'GitHub'-flavoured 'markdown' so that you can tinker to your hearts content.
#> 311 Convert natural language text into tokens. Includes tokenizers for shingled n-grams, skip n-grams, words, word stems, sentences, paragraphs, characters, shingled characters, lines, Penn Treebank, regular expressions, as well as functions for counting characters, words, and sentences, and a function for splitting longer texts into separate documents, each with the same number of words. The tokenizers have a consistent interface, and the package is built on the 'stringi' and 'Rcpp' packages for fast yet correct tokenization in 'UTF-8'.
#> 312 'BEAST2' (<https://www.beast2.org>) is a widely used Bayesian phylogenetic tool, that uses DNA/RNA/protein data and many model priors to create a posterior of jointly estimated phylogenies and parameters. 'Tracer' (<https://github.com/beast-dev/tracer/>) is a GUI tool to parse and analyze the files generated by 'BEAST2'. This package provides a way to parse and analyze 'BEAST2' input files without active user input, but using R function calls instead.
#> 313 Access 'Open Trade Statistics' API from R to download international trade data.
#> 314 Species trait data from many sources, including sequence data from 'NCBI' (<https://www.ncbi.nlm.nih.gov/>), plant traits from 'BETYdb', and data from 'EOL Traitbank' and 'Birdlife International'.
#> 315 Interface to the API for 'TreeBASE' <http://treebase.org> from 'R.' 'TreeBASE' is a repository of user-submitted phylogenetic trees (of species, population, or genes) and the data used to create them.
#> 316 An implementation that combines trait data and a phylogenetic tree (or trees) into a single object of class treedata.table. The resulting object can be easily manipulated to simultaneously change the trait- and tree-level sampling. Currently implemented functions allow users to use a 'data.table' syntax when performing operations on the trait dataset within the treedata.table object.
#> 317 Combine a list of taxa with a phylogeny to generate a starting tree for use in total evidence dating analyses.
#> 318 Time series toolkit with identical behavior for all time series classes: 'ts','xts', 'data.frame', 'data.table', 'tibble', 'zoo', 'timeSeries', 'tsibble', 'tis' or 'irts'. Also converts reliably between these classes.
#> 319 Download and explore datasets from UCSC Xena data hubs, which are a collection of UCSC-hosted public databases such as TCGA, ICGC, TARGET, GTEx, CCLE, and others. Databases are normalized so they can be combined, linked, filtered, explored and downloaded.
#> 320 Functions for the creation and manipulation of scenes and objects within the 'Unity' '3D' video game engine (<https://unity.com/>). Specific focuses include the creation and import of terrain data and 'GameObjects' as well as scene management.
#> 321 Utilities to interact with the R-universe platform. Includes functions to manage local package repositories, as well as API wrappers for retrieving data and metadata about packages in r-universe.
#> 322 Wraps the 'unrtf' utility <https://www.gnu.org/software/unrtf/> to extract text from RTF files. Supports document conversion to HTML, LaTeX or plain text. Output in HTML is recommended because 'unrtf' has limited support for converting between character encodings.
#> 323 The boundaries for geographical units in the United States of America contained in this package include state, county, congressional district, and zip code tabulation area. Contemporary boundaries are provided by the U.S. Census Bureau (public domain). Historical boundaries for the years from 1629 to 2000 are provided form the Newberry Library's 'Atlas of Historical County Boundaries' (licensed CC BY-NC-SA). Additional data is provided in the 'USAboundariesData' package; this package provides an interface to access that data.
#> 324 Contains datasets, including higher resolution boundary data, for use in the 'USAboundaries' package. These datasets come from the U.S. Census Bureau, the Newberry Library's 'Historical Atlas of U.S. County Boundaries', and Erik Steiner's 'United States Historical City Populations, 1790-2010'.
#> 325 Record test suite 'HTTP' requests and replays them during future runs. A port of the Ruby gem of the same name (<https://github.com/vcr/vcr/>). Works by hooking into the 'webmockr' R package for matching 'HTTP' requests by various rules ('HTTP' method, 'URL', query parameters, headers, body, etc.), and then caching real 'HTTP' responses on disk in 'cassettes'. Subsequent 'HTTP' requests matching any previous requests in the same 'cassette' use a cached 'HTTP' response.
#> 326 Provides users with a simple and convenient mechanism to manage and query a 'Virtuoso' database using the 'DBI' (Data-Base Interface) compatible 'ODBC' (Open Database Connectivity) interface. 'Virtuoso' is a high-performance "universal server," which can act as both a relational database, supporting standard Structured Query Language ('SQL') queries, while also supporting data following the Resource Description Framework ('RDF') model for Linked Data. 'RDF' data can be queried using 'SPARQL' ('SPARQL' Protocol and 'RDF' Query Language) queries, a graph-based query that supports semantic reasoning. This allows users to leverage the performance of local or remote 'Virtuoso' servers using popular 'R' packages such as 'DBI' and 'dplyr', while also providing a high-performance solution for working with large 'RDF' 'triplestores' from 'R.' The package also provides helper routines to install, launch, and manage a 'Virtuoso' server locally on 'Mac', 'Windows' and 'Linux' platforms using the standard interactive installers from the 'R' command-line. By automatically handling these setup steps, the package can make using 'Virtuoso' considerably faster and easier for a most users to deploy in a local environment. Managing the bulk import of triples from common serializations with a single intuitive command is another key feature of this package. Bulk import performance can be tens to hundreds of times faster than the comparable imports using existing 'R' tools, including 'rdflib' and 'redland' packages.
#> 327 Create preliminary exploratory data visualisations of an entire dataset to identify problems or unexpected features using 'ggplot2'.
#> 328 wateRinfo facilitates access to waterinfo.be (<https://www.waterinfo.be>), a website managed by the Flanders Environment Agency (VMM) and Flanders Hydraulics Research. The website provides access to real-time water and weather related environmental variables for Flanders (Belgium), such as rainfall, air pressure, discharge, and water level. The package provides functions to search for stations and variables, and download time series.
#> 329 Assessing predictive models of spatial data can be challenging, both because these models are typically built for extrapolating outside the original region represented by training data and due to potential spatially structured errors, with "hot spots" of higher than expected error clustered geographically due to spatial structure in the underlying data. Methods are provided for assessing models fit to spatial data, including approaches for measuring the spatial structure of model errors, assessing model predictions at multiple spatial scales, and evaluating where predictions can be made safely. Methods are particularly useful for models fit using the 'tidymodels' framework. Methods include Moran's I ('Moran' (1950) <doi:10.2307/2332142>), Geary's C ('Geary' (1954) <doi:10.2307/2986645>), Getis-Ord's G ('Ord' and 'Getis' (1995) <doi:10.1111/j.1538-4632.1995.tb00912.x>), agreement coefficients from 'Ji' and Gallo (2006) (<doi: 10.14358/PERS.72.7.823>), agreement metrics from 'Willmott' (1981) (<doi: 10.1080/02723646.1981.10642213>) and 'Willmott' 'et' 'al'. (2012) (<doi: 10.1002/joc.2419>), an implementation of the area of applicability methodology from 'Meyer' and 'Pebesma' (2021) (<doi:10.1111/2041-210X.13650>), and an implementation of multi-scale assessment as described in 'Riemann' 'et' 'al'. (2010) (<doi:10.1016/j.rse.2010.05.010>).
#> 330 There are a number of binary files associated with the 'Webdriver'/'Selenium' project. This package provides functions to download these binaries and to manage processes involving them.
#> 331 Provides means for downloading historical weather data from the Environment and Climate Change Canada website (<https://climate.weather.gc.ca/historical_data/search_historic_data_e.html>). Data can be downloaded from multiple stations and over large date ranges and automatically processed into a single dataset. Tools are also provided to identify stations either by name or proximity to a location.
#> 332 Provides automated downloading, parsing and formatting of weather data for Australia through API endpoints provided by the Department of Primary Industries and Regional Development ('DPIRD') of Western Australia and by the Science and Technology Division of the Queensland Government's Department of Environment and Science ('DES'). As well as the Bureau of Meteorology ('BOM') of the Australian government precis and coastal forecasts, and downloading and importing radar and satellite imagery files. 'DPIRD' weather data are accessed through public 'APIs' provided by 'DPIRD', <https://www.agric.wa.gov.au/weather-api-20>, providing access to weather station data from the 'DPIRD' weather station network. Australia-wide weather data are based on data from the Australian Bureau of Meteorology ('BOM') data and accessed through 'SILO' (Scientific Information for Land Owners) Jeffrey et al. (2001) <doi:10.1016/S1364-8152(01)00008-1>. 'DPIRD' data are made available under a Creative Commons Attribution 3.0 Licence (CC BY 3.0 AU) license <https://creativecommons.org/licenses/by/3.0/au/deed.en>. SILO data are released under a Creative Commons Attribution 4.0 International licence (CC BY 4.0) <https://creativecommons.org/licenses/by/4.0/>. 'BOM' data are (c) Australian Government Bureau of Meteorology and released under a Creative Commons (CC) Attribution 3.0 licence or Public Access Licence ('PAL') as appropriate, see <http://www.bom.gov.au/other/copyright.shtml> for further details.
#> 333 Chemical information from around the web. This package interacts with a suite of web services for chemical information. Sources include: Alan Wood's Compendium of Pesticide Common Names, Chemical Identifier Resolver, ChEBI, Chemical Translation Service, ChemSpider, ETOX, Flavornet, NIST Chemistry WebBook, OPSIN, PubChem, SRS, Wikidata.
#> 334 Stubbing and setting expectations on 'HTTP' requests. Includes tools for stubbing 'HTTP' requests, including expected request conditions and response conditions. Match on 'HTTP' method, query parameters, request body, headers and more. Can be used for unit tests or outside of a testing context.
#> 335 'Taxonomic' information from 'Wikipedia', 'Wikicommons', 'Wikispecies', and 'Wikidata'. Functions included for getting taxonomic information from each of the sources just listed, as well performing taxonomic search.
#> 336 Functions for the import, transformation, and analysis of data from muscle physiology experiments. The work loop technique is used to evaluate the mechanical work and power output of muscle. Josephson (1985) <doi:10.1242/jeb.114.1.493> modernized the technique for application in comparative biomechanics. Although our initial motivation was to provide functions to analyze work loop experiment data, as we developed the package we incorporated the ability to analyze data from experiments that are often complementary to work loops. There are currently three supported experiment types: work loops, simple twitches, and tetanus trials. Data can be imported directly from .ddf files or via an object constructor function. Through either method, data can then be cleaned or transformed via methods typically used in studies of muscle physiology. Data can then be analyzed to determine the timing and magnitude of force development and relaxation (for isometric trials) or the magnitude of work, net power, and instantaneous power among other things (for work loops). Although we do not provide plotting functions, all resultant objects are designed to be friendly to visualization via either base-R plotting or 'tidyverse' functions. This package has been peer-reviewed by rOpenSci (v. 1.1.0).
#> 337 Client for World Register of Marine Species (<https://www.marinespecies.org/>). Includes functions for each of the API methods, including searching for names by name, date and common names, searching using external identifiers, fetching synonyms, as well as fetching taxonomic children and taxonomic classification.
#> 338 Zero-dependency data frame to xlsx exporter based on 'libxlsxwriter' <https://libxlsxwriter.github.io>. Fast and no Java or Excel required.
#> 339 An extension for the 'xml2' package to transform XML documents by applying an 'xslt' style-sheet.
#> 340 Facilitates download of financial data from Yahoo Finance <https://finance.yahoo.com/>, a vast repository of stock price data across multiple financial exchanges. The package offers a local caching system and support for parallel computation.
#> 341 Add linebreaks at the end of sentences and remove other linebreaks.
#> 342 A universal client for depositing and accessing research data anywhere. Currently supported services are zenodo and figshare.
#> 343 What the package does (one paragraph).
#> 344 A free, lightweight, open source option for analyzing text-based qualitative data. Enables analysis of interview transcripts, observation notes, memos, and other sources. Supports the work of social scientists, historians, humanists, and other researchers who use qualitative methods. Addresses the unique challenges faced in analyzing qualitative data analysis. Provides opportunities for researchers who otherwise might not develop software to build software development skills.
#> 345 Automate the Transformation of a Google Document into a Quarto Book source.
#> 346 Convert R package documentation to a 'readthedocs' website.
#> 347 Provides validation functions for common interchange formats for representing text data in R. Includes formats for corpus objects, document term matrices, and tokens. Other annotations can be stored by overloading the tokens structure.
#> maintainer
#> 1 Tony Fischetti
#> 2 Matthew Strimas-Mackey
#> 3 Mark Padgham
#> 4 Maëlle Salmon
#> 5 Maëlle Salmon
#> 6 Jeroen Ooms
#> 7 Maëlle Salmon
#> 8 Jeroen Ooms
#> 9 Salvador Fernández-Bejarano
#> 10 Peter Desmet
#> 11 Jeroen Ooms
#> 12 Maëlle Salmon
#> 13 Mark Padgham
#> 14 Mark Padgham
#> 15 Mark Padgham
#> 16 Maëlle Salmon
#> 17 Mark Padgham
#> 18 Steffi LaZerte
#> 19 Mark Padgham
#> 20 Maëlle Salmon
#> 21 Mark Padgham
#> 22 Maëlle Salmon
#> 23 Michael Mahoney
#> 24 Maëlle Salmon
#> 25 Jeroen Ooms
#> 26 Mark Padgham
#> 27 Guangchuang Yu
#> 28 Will Frierson
#> 29 Paola Corrales
#> 30 Mark Padgham
#> 31 Erika Gonzalez-Akre
#> 32 Ben Raymond
#> 33 Jeroen Ooms
#> 34 Byron Jaeger
#> 35 Carl Boettiger
#> 36 Karl Broman
#> 37 Jeroen Ooms
#> 38 Michael McCall
#> 39 Richèl J.C. Bilderbeek
#> 40 Robert Colautti
#> 41 Marcelo Araya-Salas
#> 42 Lluís Revilla Sancho
#> 43 Richèl J.C. Bilderbeek
#> 44 Richèl J.C. Bilderbeek
#> 45 Gianluca Baio
#> 46 James Joseph Balamuta
#> 47 Mark Padgham
#> 48 Jonathan Völkle
#> 49 Hajk-Georg Drost
#> 50 Renata Diaz
#> 51 Salix Dubois
#> 52 Ben Raymond
#> 53 Luna L Sanchez Reyes
#> 54 Thomas Zwagerman
#> 55 Clemens Schmid
#> 56 Simon Nolte
#> 57 Lukas Lundstrom
#> 58 Joel H. Nitta
#> 59 Rob Briers
#> 60 Mauricio Vargas
#> 61 Diego Hernangómez
#> 62 Roel M. Hogervorst
#> 63 Kauê de Sousa
#> 64 Eric Brown
#> 65 Insang Song
#> 66 Karl W Broman
#> 67 Patrick Schratz
#> 68 David Selby
#> 69 Francisco Alves
#> 70 Jeroen Ooms
#> 71 Jeroen Ooms
#> 72 Carl Boettiger
#> 73 Erik Bulow
#> 74 Mahmoud Ahmed
#> 75 Paul Bochtler
#> 76 Andreas Schneider
#> 77 Alexander Zizka
#> 78 Josep Pueyo-Ros
#> 79 Mahmoud Ahmed
#> 80 Scott Chamberlain
#> 81 Rich FitzJohn
#> 82 T. Phuong Quan
#> 83 Diego R. Barneche
#> 84 Matthew B. Jones
#> 85 Dave Slager
#> 86 Jason Taylor
#> 87 Bryce Mecum
#> 88 Nathan Constantine-Cooke
#> 89 Mohammed Ali
#> 90 Ronald Visser
#> 91 Jonathan Keane
#> 92 Daniel Münch
#> 93 Daniel Münch
#> 94 William Michael Landau
#> 95 Joel H. Nitta
#> 96 Santtu Tikka
#> 97 Colin Smith
#> 98 Abigail G. Keller
#> 99 Matthew Hoff
#> 100 Scott Chamberlain
#> 101 Carl Boettiger
#> 102 Carl Boettiger
#> 103 Sebastian Zeki
#> 104 G.L. Orozco-Mulfinger
#> 105 Carolina Pradier
#> 106 Matthew Leonawicz
#> 107 Jorge Cimentada
#> 108 Najko Jahn
#> 109 Jeffrey R. Stevens
#> 110 Tyler Littlefield
#> 111 Dean Attali
#> 112 Rohit Goswami
#> 113 R. Kyle Bocinsky
#> 114 Kristof Haneca
#> 115 Annabel Westermann
#> 116 Air Forbes
#> 117 Jeroen Ooms
#> 118 Nicolas Casajus
#> 119 Carl Boettiger
#> 120 Yaoxiang Li
#> 121 Michael Sumner
#> 122 Michael Mahoney
#> 123 Barry Rowlingson
#> 124 Nicholas Tierney
#> 125 Adam H. Sparks
#> 126 Mark Padgham
#> 127 Simon R Parker
#> 128 Scott Chamberlain
#> 129 Stefan Widgren
#> 130 Thierry Onkelinx
#> 131 Philippe Massicotte
#> 132 William Michael Landau
#> 133 Rex Parsons
#> 134 Mark Edmondson
#> 135 Laura Graham
#> 136 Jeroen Ooms
#> 137 Adam H. Sparks
#> 138 Alasdair Warwick
#> 139 Jon Harmon
#> 140 Brenton M. Wiernik
#> 141 Dorothea Hug Peter
#> 142 Tad Dallas
#> 143 Lincoln Mullen
#> 144 Tamás Stirling
#> 145 Jeroen Ooms
#> 146 Konstantinos Vantas
#> 147 Alan O'Callaghan
#> 148 Rory Nolan
#> 149 Lincoln Mullen
#> 150 William Michael Landau
#> 151 Jeroen Ooms
#> 152 Jeroen Ooms
#> 153 Jeroen Ooms
#> 154 Rich FitzJohn
#> 155 Thomas Klebel
#> 156 Marcos Prunello
#> 157 Jeroen Ooms
#> 158 Marco Sciaini
#> 159 Hugo Gruson
#> 160 George Moroz
#> 161 Jeroen Ooms
#> 162 Rachael Stickland
#> 163 Mark Padgham
#> 164 Richèl J.C. Bilderbeek
#> 165 Alex Koiter
#> 166 Richèl J.C. Bilderbeek
#> 167 Daniel Vartanian
#> 168 Yaoxiang Li
#> 169 Eunseop Kim
#> 170 Luigi Ranghetti
#> 171 Salvador Jesús Fernández Bejarano
#> 172 Jingning Shi
#> 173 Victor Ordu
#> 174 Adam H. Sparks
#> 175 Simon J. Goring
#> 176 Marco Sciaini
#> 177 Sebastian Hanss
#> 178 Ralf Herold
#> 179 Evan Odell
#> 180 Frank Farach
#> 181 Moritz Hennicke
#> 182 Michal Bojanowski
#> 183 Hannah L. Owens
#> 184 Marcelo Araya-Salas
#> 185 Dhakal Rijan
#> 186 Massimo Aria
#> 187 Daniel Possenriede
#> 188 Jeroen Ooms
#> 189 Malcolm Morgan
#> 190 Aaron Wolen
#> 191 Joan Maspons
#> 192 Mark Padgham
#> 193 Andrea Gilardi
#> 194 Mark Padgham
#> 195 Rafael Pilliard Hellwig
#> 196 Adrián Castro Insua
#> 197 Scott Chamberlain
#> 198 Bruno Nicenboim
#> 199 Alban Sagouis
#> 200 Christopher Baker
#> 201 Vikram B. Baliga
#> 202 Jeroen Ooms
#> 203 George Moroz
#> 204 Isaac Bravo
#> 205 Cristian Roman Palacios
#> 206 Luna Luisa Sanchez Reyes
#> 207 Shaun Wilkinson
#> 208 Shixiang Wang
#> 209 Carl Boettiger
#> 210 Carlos Real
#> 211 Sean Hughes
#> 212 Compagnoni Aldo
#> 213 Eryk Walczak
#> 214 Jeroen Ooms
#> 215 Rex Parsons
#> 216 Alan Butler
#> 217 Jeroen Ooms
#> 218 Jeroen Ooms
#> 219 Florencia D'Andrea
#> 220 Giovanni Saraceno
#> 221 Mario Gavidia-Calderón
#> 222 Julia Silge
#> 223 Kshitiz Gupta
#> 224 Katarzyna Markowska
#> 225 Wilson Freitas
#> 226 Kevin Cazelles
#> 227 Najko Jahn
#> 228 Bianca Kramer
#> 229 Henry Senyondo
#> 230 Carl Boettiger
#> 231 OJ Watson
#> 232 Scott Chamberlain
#> 233 Chung-hong Chan
#> 234 Sebastian Pardo
#> 235 Mathew W. McLean
#> 236 Emilio Bruna
#> 237 Alessandro Oggioni
#> 238 David Winter
#> 239 Roy Mendelssohn
#> 240 Joel H. Nitta
#> 241 Dylan Turner
#> 242 Carl Boettiger
#> 243 Karthik Ram
#> 244 John Waller
#> 245 Jorrit Poelen
#> 246 Joel H. Nitta
#> 247 Carl Boettiger
#> 248 Maëlle Salmon
#> 249 Stéphane Guillou
#> 250 Julia Blum
#> 251 Bruno Rodrigues
#> 252 Kevin Cazelles
#> 253 Nicholas Potter
#> 254 Philippe Massicotte
#> 255 Philippe Massicotte
#> 256 Andy South
#> 257 Carl Boettiger
#> 258 Najko Jahn
#> 259 Jordan Bradford
#> 260 Micha Silver
#> 261 Francois Michonneau
#> 262 David Ranzolin
#> 263 Alejandro Baranek
#> 264 John Deck
#> 265 William Gearty
#> 266 Elin Waring
#> 267 Tim Trice
#> 268 Unai Pérez - Goya
#> 269 Jonathan Völkle
#> 270 Julia Gustavsen
#> 271 Jeroen Ooms
#> 272 Sasha Goodman
#> 273 Florian W. Mayer
#> 274 Franz-Sebastian Krah
#> 275 Dave Slager
#> 276 Jeroen Ooms
#> 277 Elin Waring
#> 278 Filipe Teixeira
#> 279 Robin Lovelace
#> 280 Maxwell Joseph
#> 281 Yaoxiang Li
#> 282 Alec L. Robitaille
#> 283 Jeroen Ooms
#> 284 Simon Nolte
#> 285 Hannah Owens
#> 286 Jeroen Ooms
#> 287 William Michael Landau
#> 288 Robin Lovelace
#> 289 Robin Lovelace
#> 290 William D. Pearse
#> 291 Austin Koontz
#> 292 Mauricio Vargas Sepulveda
#> 293 Eric Brown
#> 294 William Michael Landau
#> 295 William Michael Landau
#> 296 Zachary Foster
#> 297 Carl Boettiger
#> 298 Zachary Foster
#> 299 Tamás Stirling
#> 300 Miguel Alvarez
#> 301 Michael Mahoney
#> 302 Jeroen Ooms
#> 303 Yaoxiang Li
#> 304 Eli Miller
#> 305 Sam Albers
#> 306 Michael Sumner
#> 307 Chris Stubben
#> 308 Edward Wallace
#> 309 Matthew Leonawicz
#> 310 Zhian N. Kamvar
#> 311 Thomas Charlon
#> 312 Richèl J.C. Bilderbeek
#> 313 Mauricio Vargas
#> 314 David LeBauer
#> 315 Carl Boettiger
#> 316 Cristian Roman-Palacios
#> 317 April Wright
#> 318 Christoph Sax
#> 319 Shixiang Wang
#> 320 Michael Mahoney
#> 321 Jeroen Ooms
#> 322 Jeroen Ooms
#> 323 Lincoln Mullen
#> 324 Lincoln Mullen
#> 325 Scott Chamberlain
#> 326 Carl Boettiger
#> 327 Nicholas Tierney
#> 328 Stijn Van Hoey
#> 329 Michael Mahoney
#> 330 Jonathan Völkle
#> 331 Steffi LaZerte
#> 332 Rodrigo Pires
#> 333 Tamás Stirling
#> 334 Scott Chamberlain
#> 335 Zachary Foster
#> 336 Vikram B. Baliga
#> 337 Bart Vanhoorne.
#> 338 Jeroen Ooms
#> 339 Jeroen Ooms
#> 340 Marcelo Perlin
#> 341 Maëlle Salmon
#> 342 Mark Padgham
#> 343 Maëlle Salmon
#> 344 Elin Waring
#> 345 Maëlle Salmon
#> 346 Mark Padgham
#> 347 Taylor Arnold
#> keywords
#> 1 analysis-pipeline, assertion-library, assertion-methods, assertions, peer-reviewed, predicate-functions
#> 2 dataset, ebird
#> 3 automated-testing, fuzzing, testing
#> 4
#> 5
#> 6 cmark, cmark-gfm, gfm, markdown
#> 7
#> 8 git, password, ssh
#> 9 biology, dataproducts, emodnet, marine-data, wfs
#> 10 frictionlessdata, oscibio
#> 11 libgit2
#> 12 github, github-backup, github-backups
#> 13
#> 14 compliance-automation, software-analysis, software-checking
#> 15 cpp, embeddings, llms, natural-language-processing
#> 16 review, ropensci, ropensci-reviews, unconf, unconf18
#> 17 code-analysis, code-statistics, cpp, software-analysis
#> 18
#> 19 dashboard, software-metrics
#> 20
#> 21
#> 22 pkgdown
#> 23
#> 24 git
#> 25 libsodium
#> 26 compliance-automation, cpp, statistical-software
#> 27 alignment, annotation, clustering, dataimport, datarepresentation, exporter, multiplesequencealignment, parser, phylogenetic-trees, phylogenetics, software
#> 28
#> 29 agricultura, cpp, meteorologia
#> 30
#> 31
#> 32 antarctic, gazetteer, peer-reviewed, place names, southern ocean
#> 33 antiword, extract-text
#> 34 cpp, data-science, oblique, openblas, openmp, random-forest, survival
#> 35 archiving, database, dbi, peer-reviewed
#> 36 arxiv, arxiv-analytics, arxiv-api, arxiv-org
#> 37 ffmpeg
#> 38
#> 39 bayesian-inference, beast2, openjdk, phylogenetics
#> 40
#> 41 acoustic-signals, animal, behavior, bioacoustics
#> 42 bioconductor, bioconductor-package, sets
#> 43 bayesian, beast, beast2, openjdk, phylogenetic-inference, phylogenetics
#> 44 bayesian, beast, beast2, beauti, phylogenetic-inference, phylogenetics
#> 45 bibtex, peer-reviewed
#> 46 bibtex, parser
#> 47 bicycle-hire, bicycle-hire-systems, bike-data, bike-hire, bike-hire-systems, cpp, database, peer-reviewed
#> 48
#> 49 annotation-retrieval, biological-data-retrieval, biomart, database-retrieval, ensembl, ensembl-servers, genome, genome-annotation, genome-retrieval, genomic-data-retrieval, genomics, meta-analysis, metagenomics, ncbi, ncbi-genbank, peer-reviewed, proteome, sequenced-genomes
#> 50
#> 51 api-wrapper, barcode, barcodes, biodiversity, dna, fasta, sequences, taxize
#> 52 antarctic, climate, data, environmental, peer-reviewed, ropensci, satellite, southern ocean
#> 53 molecular, phylogenies, phylogeny, phylomatic, plants, tree
#> 54 data-versioning, qaqc, timeseries, verification
#> 55 archaeology, radiocarbon-dates
#> 56 cpp
#> 57 peer-reviewed
#> 58 biodiversity, canape
#> 59
#> 60 censo, census, chile, demografia, demographics, duckdb, redatam
#> 61 attribution, cff, citation, citation-file-format, citation-files, credit, metadata, ropensci
#> 62 data, dataset, fake-data, faker, peer-reviewed
#> 63 chirps, climatology, precipitation-data
#> 64 antipsychotic, pharmacology, psychiatry, schizophrenia
#> 65
#> 66
#> 67 api-client, circle-ci, continuous-deployment, continuous-integration
#> 68 bibtex, citation, citations, doi, metadata, opencitations, pmcid, pmid, sparql
#> 69 api, api-wrapper, ckan, ckan-api, data, database, dataset, open-data
#> 70 cld, cld2, cpp, language-detection, language-detector
#> 71 cld, cld3, cpp, language-detection, language-detector, protobuf
#> 72 citation, codemeta, credit, json-ld, linked-data, metadata, peer-reviewed, ropensci
#> 73 classification, icd-10
#> 74 colocalization, image-analysis
#> 75 api, comtrade, peer-reviewed, supply-chain
#> 76 business-analytics, competition, concentration, diversity, inequality, package-development
#> 77
#> 78
#> 79 cancer-genomics, database, datascience, microrna, peer-reviewed, tcga-data, transcription-factors
#> 80 api, async, caching, curl, download, http, https, libcurl, mocking, web-services
#> 81 encryption, openssl, peer-reviewed, sodium
#> 82 data-quality, initial-data-analysis, reproducible-research, temporal-data, time-series
#> 83 aims, australia, data, marine, monitoring, sst, weather
#> 84
#> 85 peer-reviewed, reproducibility
#> 86 cavd-dataspace
#> 87 data, dataset, metadata, schema-org, unconf, unconf18
#> 88 cpp, dates, wrangling
#> 89
#> 90 archaeology, dendrochronology, dendroprovenance, graphandnetwork, network, network-analysis, thirdpartyclient, tree-rings, visualization
#> 91
#> 92 peer-reviewed
#> 93 peer-reviewed
#> 94 data-science, drake, high-performance-computing, makefile, peer-reviewed, pipeline, reproducibility, reproducible-research, ropensci, workflow
#> 95 database
#> 96 bayesian-inference, panel-data, stan, statistical-models
#> 97 ecology, eml-metadata, open-access, open-data, research-data-management, research-data-repository
#> 98 cpp
#> 99 eia, eia-api, energy-data, energy-information-administration, open-data
#> 100 api, data-science, database, database-wrapper, documents, elasticsearch, etl, http, java, json, nosql, search
#> 101 eml, eml-metadata, metadata-standard
#> 102
#> 103 endoscopy, gastroenterology, peer-reviewed, semi-structured-data, text-mining
#> 104
#> 105 eph, indec, mercado-de-trabajo, rstatses
#> 106 epub, epub-files, epub-format, peer-reviewed
#> 107 ess
#> 108 bibliometrics, europe-pmc, pubmed, pubmedcentral, scientific-literature, scientific-publications
#> 109 datacleaning, exclusion, mturk, qualtrics
#> 110 api, exoplanets, nasa
#> 111 knitr, peer-reviewed, reproducibility, rmarkdown, rmd
#> 112 cpp, cpp17, matrix-market, matrix-market-format, r-cpp11
#> 113 peer-reviewed
#> 114 dendrochronology, sapwood, tree-rings
#> 115 api-wrapper, fingertips, health, open-data, peer-reviewed, public-health, public-health-england
#> 116
#> 117 fluidsynth, libsdl2
#> 118
#> 119
#> 120 gender-diversity, ozunconf18, unconf
#> 121 bbox, conversion, crs, data, geobuf, geojson, geospatial, input-output, ndgeojson, polygon, spatial
#> 122 conversion, data, geojson, geospatial, input-output, io, topojson
#> 123
#> 124 geospatial, pipeline, r-targetopia, raster, reproducibility, reproducible-research, targets, vector, workflow
#> 125 anglia-cru, climate-data, cru, cru-cl2, data-access, diurnal-temperature, elevation, frost, peer-reviewed, rainfall, relative-humidity, solar-radiation, temperature, wind
#> 126 api, curl, data, graphql, graphql-api, graphql-client, http, web-services
#> 127 anthropometry, growth-standards, intergrowth, who
#> 128 api, api-wrapper, code, gist, gists, github, github\napi, github-api, github-gist, http, https, script, snippet, web-services
#> 129 git, git-client, libgit2, libgit2-library
#> 130 reproducible-research, version-control
#> 131
#> 132 data-science, data-version-control, data-versioning, reproducibility, reproducible-research, targets, workflow
#> 133
#> 134 cloud-speech-api, cloud-translation-api, google-api-client, google-cloud, google-cloud-speech, google-nlp, googleauthr, natural-language-processing, peer-reviewed, sentiment-analysis, speech-api, translation-api
#> 135
#> 136 cpp, graphql, libgraphql
#> 137 daily-data, daily-weather, data-access, global-data, global-weather, gsod, historical-data, historical-weather, meteorological-data, meteorology, ncdc, ncei, station-data, surface-weather, us-ncdc, us-ncei, weather, weather-data, weather-information, weather-stations
#> 138 api-wrapper, bioinformatics, eqtl, gtex, sqtl
#> 139 peer-reviewed
#> 140 bibtex, citation, citations, citeproc, codemeta, crosscite, crossref, digital-object-identifier, doi, json, metadata, rdf, ris, xml
#> 141 data60uk, grdc, hydrology, kgclimateclass, mopex, peer-reviewed, precipitation, sepa
#> 142 disease-networks, helminth, open-data, parasites
#> 143
#> 144 caching, data, files, pdf, xml
#> 145 cpp, hunspell, spell-check, spellchecker, stemmer, tokenizer
#> 146 climate, greece, hydrology, hydrometeorology, hydroscope, meteorological-data, meteorological-stations, peer-reviewed, tidy-data, time-series, water-resources
#> 147 data-visualization, heatmap, htmlwidgets, interactive-visualizations, peer-reviewed, plotly
#> 148 image-manipulation, imagej, peer-reviewed, tiff, tiff-files, tiff-images
#> 149
#> 150 bayesian, cpp, high-performance-computing, jags, make, r-targetopia, reproducibility, rjags, statistics, targets
#> 151
#> 152 jq, json
#> 153 json-ld
#> 154 json, json-validation, jsonvalidate
#> 155 jstor, peer-reviewed, text-analysis, text-mining
#> 156 learning, programming, r-language
#> 157
#> 158 landscape, landscape-ecology, raster, visualization, workflow
#> 159 file-import, reproducibility, reproducible-research, reproducible-science, spectral-data, spectroscopy
#> 160 abvd, afbo, atlas, autotype, bivaltyp, clld, glottolog-database, linguistic-maps, linguistics, phoible, sails, typology, wals
#> 161 cpp, image-manipulation, image-processing, imagemagick
#> 162 hdruk, hdruk-gateway, health-data, metadata, sail-databank
#> 163 cpp, maps, scan, spatial
#> 164 openjdk
#> 165
#> 166 openjdk
#> 167 biological-rhythm, chronobiology, chronotype, circadian-phenotype, circadian-rhythm, entrainment, infrastructure, mctq, peer-reviewed, preprocessing, sleep, temporal-phenotype, visualization
#> 168 bibliographic-database, biorxiv, evidence-synthesis, medrxiv-data, peer-reviewed, preprint-records, systematic-reviews
#> 169 cpp, openmp
#> 170 gdal, modis, modis-data, modis-land-products, peer-reviewed, preprocessing, remote-sensing, satellite-imagery, time-series
#> 171
#> 172 dendrochronology, forest, forestry, shiny-apps, shinyapp, tree-ring-width, tree-rings
#> 173
#> 174 agroclimatology, agroclimatology-data, climate-data, data-access, earth-science, global, meteorological-data, meteorology, nasa, nasa-power, weather, weather-data, weather-variables
#> 175 neotoma, neotoma-apis, neotoma-database, nsf, paleoecology
#> 176 cpp, landscape-ecology, neutral-landscape-model, peer-reviewed, spatial
#> 177 agent-based-modeling, individual-based-modelling, netlogo, peer-reviewed
#> 178 couchdb, database, documents, duckdb, elasticsearch, json, mongodb, nosql, postgresql, sqlite
#> 179 api-client, census-data, demography, geographic-data, national-statistics, official-statistics, officialstatistics, peer-reviewed, uk
#> 180 api-wrapper, health-data, healthcare, npi-number
#> 181 europe, european-union, eurostat, nomenclature, nuts, nuts-codes, nuts-regions, regional-data
#> 182 data-access, oai-pmh, peer-reviewed, scholarly-api
#> 183 biodiversity-data, biodiversity-informatics, biodiversity-standards, citations, museum-collection-specimens, museum-collections, museum-metadata
#> 184 audio-processing, bioacoustics, sound-event-detection, spectrogram, streamline-analysis
#> 185
#> 186 bibliographic-data, bibliographic-database, bibliometrics, bibliometrix, science-mapping
#> 187 geocode, geocoder, opencage, opencage-api, opencage-geocoder, peer-reviewed, placenames, rspatial
#> 188 cpp, opencv, opencv-library, unconf, unconf18
#> 189 data, isochrones, java, opentripplanner, otp, public-transport, routing, transport, transportation-planning
#> 190 open-science, osf, reproducible-research
#> 191 api, open street map, openstreetmap, openstreetmap-api, osm, osmapi
#> 192 cpp, cpp, open0street0map, openstreetmap, osm, osm-data, overpass-api, overpass0api, peer-reviewed
#> 193 geo, geofabrik-zone, open-data, osm, osm-pbf
#> 194 data-visualisation, highlighting-clusters, openstreetmap, osm, overpass, overpass-api, peer-reviewed
#> 195 aapor, disposition-codes, peer-reviewed, standards, survey
#> 196
#> 197 api-client, archive, atmosphere, chemistry, data, earth science, ecology, environmental science, paleobiology, paleontology, pangaea, scientific, webservice-client
#> 198 nlp, psycholinguistics, transformers
#> 199 coordinates, cpp, data, geo, geospatial, latitude, longitude, parser
#> 200 patents, patentsview, patentsview-api, peer-reviewed, uspto
#> 201 animal-movement, flydra, motion, movement-data, optitrack, trajectories, trajectory-analysis, visual-guidance, visual-perception
#> 202 cpp, pdf-files, pdf-format, pdftools, poppler, poppler-library, text-extraction
#> 203 audacity, eaf, elan, exb, exmaralda, fieldwork, flextext, phonetics, phonology, praat, srt-subtitles, textgrid
#> 204
#> 205
#> 206 character evolution, community\nstructure, community-ecology, ecology, evolution, phylocom, phylodiversity, phylogeny, species
#> 207 peer-reviewed
#> 208 blastn, genbank, peer-reviewed, phylogenetics, sequence-alignment
#> 209 data-store, git-lfs, peer-reviewed
#> 210
#> 211
#> 212
#> 213 api-wrapper, geocoder, geographic-data, peer-reviewed, postcode, uk
#> 214
#> 215
#> 216
#> 217
#> 218 cpp, libjpeg-turbo, zlib
#> 219 geospatial, quadkey, raster, tilemap
#> 220 cpp
#> 221 air-pollutants, air-quality-data, air-quality-measurements, brazil, cetesb, rio-de-janeiro, sao-paulo, weather-data
#> 222 api, qualtrics, qualtrics-api, survey, survey-data
#> 223 fisheries, marine-biology, ramlegacy, ropensci, stock-assessment
#> 224
#> 225 brazil, exchange-data, finance, financial-data, financial-services, market-data
#> 226 api-client, cites, database, endangered-species, trade
#> 227 api, api-wrapper, citations, crossref, crossref-api, doi, full-text, literature, metadata, pdf, publications, tdm, text-ming, xml
#> 228 api, api-wrapper, data, datacite, dataset, https, identifier, metadata, oai-pmh, scholarly, solr, web-services
#> 229 data, data-science, database, datasets, science
#> 230 peer-reviewed
#> 231 dataset, dhs, dhs-api, extract, peer-reviewed, survey-data
#> 232 data, doi, dryad, dryad-api, oai-pmh
#> 233 cpp
#> 234 biology, birding, birds, data, database, ebird, ebird-api, ebird-webservices, observations, ornithology, sightings, spocc
#> 235 peer-reviewed
#> 236 bibliometrics, coauthorship, collaboration, georeferencing, metascience, name disambiguation, references, science of science, scientometrics, web of science
#> 237 biodiversity-informatics, data-science, ecology, elter, research-infrastructure
#> 238
#> 239 api-client, buoy, climate, earth, erddap, noaa, noaa-data, precipitation, science, storm, temperature
#> 240 dna, entrez, genbank, sequence
#> 241
#> 242 fish, fishbase, taxonomy
#> 243 fisheries, open-data, openfisheries
#> 244 api, biodiversity, data, gbif, lifewatch, occurrences, oscibio, species, specimens, spocc, taxonomy, web-services
#> 245
#> 246 taxonomy
#> 247
#> 248 airports, asos, iowa-environment-mesonet, metar, peer-reviewed, temperature, weather, weather-api
#> 249 inaturalist, spocc
#> 250 api, api-client, api-wrapper, biology, identifiers, itis, json, names, nomenclature, species, taxize, taxonomy, web
#> 251 nix, peer-reviewed, reproducibility, reproducible-research
#> 252 data\npublications, ecology, food webs, interactions, networks, open access
#> 253
#> 254 peer-reviewed
#> 255
#> 256
#> 257 linked-data, metadata, nexml, phylogenetics
#> 258 altmetrics, code4lib, oadoi, open-access, peer-reviewed, unpaywall, webclient
#> 259 crawler, peer-reviewed, robotstxt, scraper, spider, webscraping
#> 260
#> 261 biodiversity, independant-contrasts, metadata, peer-reviewed, phylogenetics, phylogeny, ropensci, taxonomy
#> 262 classics, greek, greek-bible, greek-new-testament, latin, peer-reviewed, perseus, perseus-digital-library, translation
#> 263 geometry, polyhedra-database, rgl
#> 264 peer-reviewed
#> 265 api, api-wrapper, biodiversity, conservation, habitat, iucn, iucn-red-list, species, taxize, traits, web-services
#> 266 hurricane, peer-reviewed, weather
#> 267 weather
#> 268 satellite-images
#> 269 rselenium, selenium, webdriver
#> 270 api, api-client, data, dbsnp, gene, genotype, ncbi, opensnp, sequence, snp, snps, species, web, web-api
#> 271 cairo, glib, librsvg
#> 272 extract-metadata, extract-text, java, parse, pdf-files, peer-reviewed, tesseract, tika
#> 273 api, data, database, dataset, odata, odata-client, odk, odk-central, open-data, opendatakit
#> 274
#> 275 api-wrapper, biodiversity, mammalia, mammals, maps, occurrences, species, specimen, specimens, spocc, vertnet
#> 276 cpp, zeromq, zeromq3, zmq
#> 277 peer-reviewed, ropensci, summary-statistics, unconf, unconf17
#> 278 air-transport, bts, bureau-of-transport-statistics, db1b, peer-reviewed, rita, skynet, t100, transtats
#> 279
#> 280 acquisition, extract-data, nasa, peer-reviewed, raster, smap-data, soil-mapping, soil-moisture, soil-moisture-sensor
#> 281 cloudant, couchdb, couchdb-client, database, documents, nosql
#> 282 animal, gps, network, social, spatial
#> 283 spell-check, spell-checker, spellcheck, spellchecker, spelling
#> 284
#> 285 ala, antweb, api, bison, data, ebird, ecoengine, gbif, idigbio, inat, inaturalist, obis, occurrence, occurrences, species, species-occurrence, specimens, spocc, taxonomy, vertnet, web-services
#> 286 libssh, ssh, ssh-client
#> 287 bayesian, high-performance-computing, make, r-targetopia, reproducibility, stan, statistics, targets
#> 288 car-crashes, data, road-safety, ropensci, stats19, transport
#> 289 cycle, cycling, desire-lines, origin-destination, peer-reviewed, pubic-transport, route-network, routes, routing, spatial, transport, transport-planning, transportation, walking
#> 290 peer-reviewed
#> 291 database, library, specimen-records, symbiota, symbiota2, symbiota2-portal
#> 292 java, openjdk, pdf, pdf-document, peer-reviewed, ropensci, tabula, tabular-data
#> 293 mri, neuroimaging, neuroscience, neuroscience-methods, pet, pet-mr, positron, positron-emission-tomography, statistics
#> 294 data-science, high-performance-computing, peer-reviewed, pipeline, r-targetopia, reproducibility, targets, workflow
#> 295 data-science, high-performance-computing, make, peer-reviewed, pipeline, r-targetopia, reproducibility, reproducible-research, targets, workflow
#> 296 biology, data-cleaning, hierarchy, taxon, taxonomy
#> 297
#> 298 api, api-client, api-wrapper, biodiversity, biology, darwincore, data, identifiers, json, names, nomenclature, species, taxize, taxonomy, web
#> 299 itis, taxize, taxonomic-databases, taxonomy
#> 300
#> 301 datasets, dems, map, map-tiles, mapping, national-map, nhd, orthoimagery, peer-reviewed, progressr, retrieve-data, terrainr, unity, unity-rendering-engine, usgs
#> 302 cpp, ocr, tesseract, tesseract-ocr
#> 303 cpp, peer-reviewed
#> 304 appveyor, continuous-integration, deployment, githubactions, travis-ci
#> 305 citz, government-data, hydrology, hydrometrics, tidy-data, water-resources
#> 306
#> 307
#> 308 miqe, qpcr, qpcr-analysis, tidyverse
#> 309
#> 310 commonmark, xml, xpath
#> 311 cpp, nlp, peer-reviewed, text-mining, tokenizer
#> 312 cpp
#> 313 api-wrapper, data-table, international-trade, jsonlite, open-trade-statistics
#> 314 api, api-client, biodiversity, ecology, environmental-data, species, species-traits, taxonomy, traits, web-services
#> 315
#> 316
#> 317
#> 318 graphics, time-series
#> 319 api-client, bioinformatics, ccle, downloader, icgc, tcga, toil, treehouse, ucsc, ucsc-xena
#> 320 unifir, unity, unity3d, visualization
#> 321
#> 322 extract-text, rtf, unrtf
#> 323 digital-history, history, spatial-data
#> 324
#> 325 api, curl, http, http-mocking, https, mock, mocking, tdd, testing, testing-tools, unit-testing, vcr, web-services
#> 326
#> 327 exploratory-data-analysis, missingness, peer-reviewed, ropensci, visualisation
#> 328 api, climate, lifewatch, open-science, oscibio, ropensci, water, weather
#> 329 spatial, spatial-analysis, tidymodels, tidyverse
#> 330 rselenium, selenium, webdriver, webdriver-manager
#> 331 environment-canada, peer-reviewed, weather-data, weather-downloader
#> 332 api-client, australia, australia-agriculture, australia-bureau-of-meteorology, australia-climate, australia-weather, bom, climate, data, dpird, meteorological-data, meteorology, rainfall, weather, weather-api, weather-data, weather-forecast, western-australia, western-australia-agriculture
#> 333 cas-number, chemical-information, chemspider, identifier, ropensci, webscraping
#> 334 api, curl, fakeweb, http, http-mock, http-mocking, https, mock, mocking, tdd, testing, testing-tools, web-services
#> 335 api, species, taxize, taxonomy, vernacular, web-services, wikicommons, wikipedia, wikipedia-api, wikispecies
#> 336 ddf, muscle-force, muscle-physiology-experiments, tetanus, work-loop, workloop
#> 337 api, api-client, api-wrapper, biological-data, biology, fish, jerico-relevant, marine, marine-biology, marine-species, science, species, taxize, taxonomy, web, worms
#> 338 excel, libxlsxwriter, xlsx, zlib
#> 339 cpp, libxml2, libxslt, xml, xslt
#> 340
#> 341
#> 342
#> 343
#> 344 unconf, unconf18
#> 345
#> 346
#> 347 corpus, natural-language-processing, term-frequency, text-processing, tokenizer
#> github
#> 1 https://github.com/ropensci/assertr
#> 2 https://github.com/CornellLabofOrnithology/auk
#> 3 https://github.com/ropensci-review-tools/autotest
#> 4 https://github.com/ropensci-review-tools/babeldown
#> 5 https://github.com/ropensci-review-tools/babelquarto
#> 6 https://github.com/r-lib/commonmark
#> 7 https://github.com/maelle/commonmetar
#> 8 https://github.com/r-lib/credentials
#> 9 https://github.com/EMODnet/emodnet.wfs
#> 10 https://github.com/frictionlessdata/frictionless-r
#> 11 https://github.com/r-lib/gert
#> 12 https://github.com/ropensci-org/gitcellar
#> 13 https://github.com/ropensci-review-tools/goodpractice
#> 14 https://github.com/ropensci-review-tools/pkgcheck
#> 15 https://github.com/ropensci-review-tools/pkgmatch
#> 16 https://github.com/ropensci-org/pkgreviewr
#> 17 https://github.com/ropensci-review-tools/pkgstats
#> 18
#> 19 https://github.com/ropensci-review-tools/repometrics
#> 20 https://github.com/ropenscilabs/roblog
#> 21 https://github.com/ropensci-review-tools/roreviewapi
#> 22 https://github.com/ropensci-org/rotemplate
#> 23 https://github.com/Permian-Global-Research/rsi
#> 24 https://github.com/ropensci-training/saperlipopette
#> 25 https://github.com/r-lib/sodium
#> 26 https://github.com/ropensci-review-tools/srr
#> 27 https://github.com/YuLab-SMU/treeio
#> 28 https://github.com/wfrierson/wmm
#> 29 https://github.com/ropensci/agroclimatico
#> 30 https://github.com/ropensci/allcontributors
#> 31 https://github.com/ropensci/allodb
#> 32 https://github.com/ropensci/antanym
#> 33 https://github.com/ropensci/antiword
#> 34 https://github.com/ropensci/aorsf
#> 35 https://github.com/ropensci/arkdb
#> 36 https://github.com/ropensci/aRxiv
#> 37 https://github.com/ropensci/av
#> 38 https://github.com/ropensci/awardFindR
#> 39 https://github.com/ropensci/babette
#> 40 https://github.com/ropensci/baRcodeR
#> 41 https://github.com/ropensci/baRulho
#> 42 https://github.com/ropensci/BaseSet
#> 43 https://github.com/ropensci/beastier
#> 44 https://github.com/ropensci/beautier
#> 45 https://github.com/ropensci/bib2df
#> 46 https://github.com/ropensci/bibtex
#> 47 https://github.com/ropensci/bikedata
#> 48 https://github.com/ropensci/binman
#> 49 https://github.com/ropensci/biomartr
#> 50 https://github.com/ropensci/birdsize
#> 51 https://github.com/ropensci/bold
#> 52 https://github.com/ropensci/bowerbird
#> 53 https://github.com/ropensci/brranching
#> 54 https://github.com/ropensci/butterfly
#> 55 https://github.com/ropensci/c14bazAAR
#> 56 https://github.com/ropensci/c3dr
#> 57 https://github.com/ropensci/camsRad
#> 58 https://github.com/ropensci/canaper
#> 59 https://github.com/ropensci/cde
#> 60 https://github.com/ropensci/censo2017
#> 61 https://github.com/ropensci/cffr
#> 62 https://github.com/ropensci/charlatan
#> 63 https://github.com/ropensci/chirps
#> 64 https://github.com/ropensci/chlorpromazineR
#> 65 https://github.com/ropensci/chopin
#> 66 https://github.com/ropensci/chromer
#> 67 https://github.com/ropensci/circle
#> 68 https://github.com/ropensci/citecorp
#> 69 https://github.com/ropensci/ckanr
#> 70 https://github.com/ropensci/cld2
#> 71 https://github.com/ropensci/cld3
#> 72 https://github.com/ropensci/codemetar
#> 73 https://github.com/ropensci/coder
#> 74 https://github.com/ropensci/colocr
#> 75 https://github.com/ropensci/comtradr
#> 76 https://github.com/ropensci/concstats
#> 77 https://github.com/ropensci/CoordinateCleaner
#> 78 https://github.com/ropensci/CRediTas
#> 79 https://github.com/ropensci/cRegulome
#> 80 https://github.com/ropensci/crul
#> 81 https://github.com/ropensci/cyphr
#> 82 https://github.com/ropensci/daiquiri
#> 83 https://github.com/ropensci/dataaimsr
#> 84 https://github.com/ropensci/datapack
#> 85 https://github.com/ropensci/DataPackageR
#> 86 https://github.com/ropensci/DataSpaceR
#> 87 https://github.com/ropensci/dataspice
#> 88 https://github.com/ropensci/datefixR
#> 89 https://github.com/ropensci/dbparser
#> 90 https://github.com/ropensci/dendroNetwork
#> 91 https://github.com/ropensci/dittodb
#> 92 https://github.com/ropensci/DoOR.data
#> 93 https://github.com/ropensci/DoOR.functions
#> 94 https://github.com/ropensci/drake
#> 95 https://github.com/ropensci/dwctaxon
#> 96 https://github.com/ropensci/dynamite
#> 97 https://github.com/ropensci/EDIutils
#> 98 https://github.com/ropensci/eDNAjoint
#> 99 https://github.com/ropensci/eia
#> 100 https://github.com/ropensci/elastic
#> 101 https://github.com/ropensci/EML
#> 102 https://github.com/ropensci/emld
#> 103 https://github.com/ropensci/EndoMineR
#> 104 https://github.com/ropensci/epair
#> 105 https://github.com/ropensci/eph
#> 106 https://github.com/ropensci/epubr
#> 107 https://github.com/ropensci/essurvey
#> 108 https://github.com/ropensci/europepmc
#> 109 https://github.com/ropensci/excluder
#> 110 https://github.com/ropensci/exoplanets
#> 111 https://github.com/ropensci/ezknitr
#> 112 https://github.com/ropensci/fastMatMR
#> 113 https://github.com/ropensci/FedData
#> 114 https://github.com/ropensci/fellingdater
#> 115 https://github.com/ropensci/fingertipsR
#> 116 https://github.com/ropensci/fireexposuR
#> 117 https://github.com/ropensci/fluidsynth
#> 118 https://github.com/ropensci/forcis
#> 119 https://github.com/ropensci/gbifdb
#> 120 https://github.com/ropensci/gendercoder
#> 121 https://github.com/ropensci/geojson
#> 122 https://github.com/ropensci/geojsonio
#> 123 https://github.com/ropensci/geonames
#> 124 https://github.com/ropensci/geotargets
#> 125 https://github.com/ropensci/getCRUCLdata
#> 126 https://github.com/ropensci/ghql
#> 127 https://github.com/ropensci/gigs
#> 128 https://github.com/ropensci/gistr
#> 129 https://github.com/ropensci/git2r
#> 130 https://github.com/ropensci/git2rdata
#> 131 https://github.com/ropensci/gitignore
#> 132 https://github.com/ropensci/gittargets
#> 133 https://github.com/ropensci/GLMMcosinor
#> 134 https://github.com/ropensci/googleLanguageR
#> 135 https://github.com/ropensci/grainchanger
#> 136 https://github.com/ropensci/graphql
#> 137 https://github.com/ropensci/GSODR
#> 138 https://github.com/ropensci/gtexr
#> 139 https://github.com/ropensci/gutenbergr
#> 140 https://github.com/ropensci/handlr
#> 141 https://github.com/ropensci/hddtools
#> 142 https://github.com/ropensci/helminthR
#> 143 https://github.com/ropensci/historydata
#> 144 https://github.com/ropensci/hoardr
#> 145 https://github.com/ropensci/hunspell
#> 146 https://github.com/ropensci/hydroscoper
#> 147 https://github.com/ropensci/iheatmapr
#> 148 https://github.com/ropensci/ijtiff
#> 149 https://github.com/ropensci/internetarchive
#> 150 https://github.com/ropensci/jagstargets
#> 151 https://github.com/ropensci/jenkins
#> 152 https://github.com/ropensci/jqr
#> 153 https://github.com/ropensci/jsonld
#> 154 https://github.com/ropensci/jsonvalidate
#> 155 https://github.com/ropensci/jstor
#> 156 https://github.com/ropensci/karel
#> 157 https://github.com/ropensci/katex
#> 158 https://github.com/ropensci/landscapetools
#> 159 https://github.com/ropensci/lightr
#> 160 https://github.com/ropensci/lingtypology
#> 161 https://github.com/ropensci/magick
#> 162 https://github.com/ropensci/mapmetadata
#> 163 https://github.com/ropensci/mapscanner
#> 164 https://github.com/ropensci/mauricer
#> 165 https://github.com/ropensci/mbquartR
#> 166 https://github.com/ropensci/mcbette
#> 167 https://github.com/ropensci/mctq
#> 168 https://github.com/ropensci/medrxivr
#> 169 https://github.com/ropensci/melt
#> 170 https://github.com/ropensci/MODIStsp
#> 171 https://github.com/ropensci/mregions2
#> 172 https://github.com/ropensci/MtreeRing
#> 173 https://github.com/ropensci/naijR
#> 174 https://github.com/ropensci/nasapower
#> 175 https://github.com/ropensci/neotoma
#> 176 https://github.com/ropensci/NLMR
#> 177 https://github.com/ropensci/nlrx
#> 178 https://github.com/ropensci/nodbi
#> 179 https://github.com/ropensci/nomisr
#> 180 https://github.com/ropensci/npi
#> 181 https://github.com/ropensci/nuts
#> 182 https://github.com/ropensci/oai
#> 183 https://github.com/ropensci/occCite
#> 184 https://github.com/ropensci/ohun
#> 185 https://github.com/ropensci/onekp
#> 186 https://github.com/ropensci/openalexR
#> 187 https://github.com/ropensci/opencage
#> 188 https://github.com/ropensci/opencv
#> 189 https://github.com/ropensci/opentripplanner
#> 190 https://github.com/ropensci/osfr
#> 191 https://github.com/ropensci/osmapiR
#> 192 https://github.com/ropensci/osmdata
#> 193 https://github.com/ropensci/osmextract
#> 194 https://github.com/ropensci/osmplotr
#> 195 https://github.com/ropensci/outcomerate
#> 196 https://github.com/ropensci/paleobioDB
#> 197 https://github.com/ropensci/pangaear
#> 198 https://github.com/ropensci/pangoling
#> 199 https://github.com/ropensci/parzer
#> 200 https://github.com/ropensci/patentsview
#> 201 https://github.com/ropensci/pathviewr
#> 202 https://github.com/ropensci/pdftools
#> 203 https://github.com/ropensci/phonfieldwork
#> 204 https://github.com/ropensci/photosearcher
#> 205 https://github.com/ropensci/phruta
#> 206 https://github.com/ropensci/phylocomr
#> 207 https://github.com/ropensci/phylogram
#> 208 https://github.com/ropensci/phylotaR
#> 209 https://github.com/ropensci/piggyback
#> 210 https://github.com/ropensci/pixelclasser
#> 211 https://github.com/ropensci/plater
#> 212 https://github.com/ropensci/popler
#> 213 https://github.com/ropensci/PostcodesioR
#> 214 https://github.com/ropensci/postdoc
#> 215 https://github.com/ropensci/predictNMB
#> 216 https://github.com/ropensci/prism
#> 217 https://github.com/ropensci/prismjs
#> 218 https://github.com/ropensci/qpdf
#> 219 https://github.com/ropensci/quadkeyr
#> 220 https://github.com/ropensci/QuadratiK
#> 221 https://github.com/ropensci/qualR
#> 222 https://github.com/ropensci/qualtRics
#> 223 https://github.com/ropensci/ramlegacy
#> 224 https://github.com/ropensci/rangr
#> 225 https://github.com/ropensci/rb3
#> 226 https://github.com/ropensci/rcites
#> 227 https://github.com/ropensci/rcrossref
#> 228 https://github.com/ropensci/rdatacite
#> 229 https://github.com/ropensci/rdataretriever
#> 230 https://github.com/ropensci/rdflib
#> 231 https://github.com/ropensci/rdhs
#> 232 https://github.com/ropensci/rdryad
#> 233 https://github.com/ropensci/readODS
#> 234 https://github.com/ropensci/rebird
#> 235 https://github.com/ropensci/RefManageR
#> 236 https://github.com/ropensci/refsplitr
#> 237 https://github.com/ropensci/ReLTER
#> 238 https://github.com/ropensci/rentrez
#> 239 https://github.com/ropensci/rerddap
#> 240 https://github.com/ropensci/restez
#> 241 https://github.com/ropensci/rfema
#> 242 https://github.com/ropensci/rfishbase
#> 243 https://github.com/ropensci/rfisheries
#> 244 https://github.com/ropensci/rgbif
#> 245 https://github.com/ropensci/rglobi
#> 246 https://github.com/ropensci/rgnparser
#> 247 https://github.com/ropensci/rgpdd
#> 248 https://github.com/ropensci/riem
#> 249 https://github.com/ropensci/rinat
#> 250 https://github.com/ropensci/ritis
#> 251 https://github.com/ropensci/rix
#> 252 https://github.com/ropensci/rmangal
#> 253 https://github.com/ropensci/rnassqs
#> 254 https://github.com/ropensci/rnaturalearth
#> 255 https://github.com/ropensci/rnaturalearthdata
#> 256 https://github.com/ropensci/rnaturalearthhires
#> 257 https://github.com/ropensci/RNeXML
#> 258 https://github.com/ropensci/roadoi
#> 259 https://github.com/ropensci/robotstxt
#> 260 https://github.com/ropensci/rOPTRAM
#> 261 https://github.com/ropensci/rotl
#> 262 https://github.com/ropensci/rperseus
#> 263 https://github.com/ropensci/Rpolyhedra
#> 264 https://github.com/ropensci/rppo
#> 265 https://github.com/ropensci/rredlist
#> 266 https://github.com/ropensci/rrricanes
#> 267 https://github.com/ropensci/rrricanesdata
#> 268 https://github.com/ropensci/rsat
#> 269 https://github.com/ropensci/RSelenium
#> 270 https://github.com/ropensci/rsnps
#> 271 https://github.com/ropensci/rsvg
#> 272 https://github.com/ropensci/rtika
#> 273 https://github.com/ropensci/ruODK
#> 274 https://github.com/ropensci/rusda
#> 275 https://github.com/ropensci/rvertnet
#> 276 https://github.com/ropensci/rzmq
#> 277 https://github.com/ropensci/skimr
#> 278 https://github.com/ropensci/skynet
#> 279 https://github.com/ropensci/slopes
#> 280 https://github.com/ropensci/smapr
#> 281 https://github.com/ropensci/sofa
#> 282 https://github.com/ropensci/spatsoc
#> 283 https://github.com/ropensci/spelling
#> 284 https://github.com/ropensci/spiro
#> 285 https://github.com/ropensci/spocc
#> 286 https://github.com/ropensci/ssh
#> 287 https://github.com/ropensci/stantargets
#> 288 https://github.com/ropensci/stats19
#> 289 https://github.com/ropensci/stplanr
#> 290 https://github.com/ropensci/suppdata
#> 291 https://github.com/ropensci/SymbiotaR2
#> 292 https://github.com/ropensci/tabulapdf
#> 293 https://github.com/ropensci/tacmagic
#> 294 https://github.com/ropensci/tarchetypes
#> 295 https://github.com/ropensci/targets
#> 296 https://github.com/ropensci/taxa
#> 297 https://github.com/ropensci/taxadb
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#> 136 http-tools FALSE 2025-04-06 21:14:13 FALSE
#> 137 data-access FALSE 2025-05-05 13:02:30 FALSE
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