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ramlegacy: download, cache and read RAM Legacy Stock Assessment Database

Source: R/ramlegacy-package.R
ramlegacy-package.Rd

ramlegacy contains functions to download, cache and read in specified tables from the excel version of the RAM Legacy Stock Assessment Database, an online compilation of stock assessment results for commercially exploited marine populations from around the world. More information about the database can be found at <https://ramlegacy.org/>.

Description of the dataframes present in the database

  • metadata: Table with summarized metadata (only available in newer versions starting from v4.40)

  • stock: This stores the stock database table

  • assessment: This stores the assessment database table

  • taxonomy: This stores the taxonomy database table

  • management: This stores the management database table

  • assessor: This stores the assessor database table

  • assessmetod: This stores the assessmetod database table

  • area: This stores the area database table

  • biometrics: This stores the biometrics database table

  • tsmetrics: This stores the tsmetrics database table

  • timeseries: The time series data is a matrix object with the following headers/columns: (1) assessid (2) stockid (3) stocklong (4) tsid (5) tsyear (6) tsvalue

  • bioparams: The parameter data is a matrix object with the following headers/columns: (1) assessid (2) stockid (3) stocklong (4) bioid (5) biovalue (6) bioyear (7) bionotes

  • timeseries_values_views: This stores the timeseries values with timeseries type along the columns and stocks along the rows

  • timeseries_units_views: This stores the timeseries values with timeseries type along the columns and stocks along the rows

  • timeseries_ids_views: This stores the timeseries IDs with timeseries type along the columns and stocks along the rows

  • timeseries_assessments_views: This stores the timeseries assessments with timeseries type along the columns and stocks along the rows

  • timeseries_notes_views: This stores the timeseries notes with timeseries type along the columns and stocks along the rows

  • timeseries_sources_views: This stores the timeseries sources with timeseries type along the columns and stocks along the rows

  • timeseries_years_views: This stores the timeseries years with timeseries type along the columns and stocks along the rows

  • bioparams_values_views: This stores the reference point values, with reference point type along the columns and stocks along the rows

  • bioparams_units_views: This stores the reference point units, with reference point type along the columns and stocks along the rows

  • bioparams_ids_views: This stores the reference point IDs, with reference point type along the columns and stocks along the rows

  • bioparams_assessments_views: This stores the reference point assessments, with reference point type along the columns and stocks along the rows

  • bioparams_sources_views: This stores the reference point sources, with reference point type along the columns and stocks along the rows

  • bioparams_notes_views: This stores the reference point notes, with reference point type along the columns and stocks along the rows

Newer versions (v4.40 onwards) also contains tables of individual most-used time series

  • tb.data: Total Biomass

  • ssb.data: Spawning Stock Biomass

  • tn.data: Total Abundance

  • r.data: Recruits

  • tc.data: Total Catch

  • tl.data: Total Landings

  • recc.data: Recreational Catch

  • f.data: Fishing Mortality

  • er.data: Exploitation Rate

  • divtb.data: TB/TBmsy

  • divssb.data: SSB/SSBmsy

  • ivf.data: F/Fmsy

  • diver.data: ER/ERmsy

  • divbpref.data: B/Bmsypref

  • divupref.data: U/Umsypref

  • tbbest.data: TBbest

  • tcbest.data: TCbest

  • erbest.data: ERbest

  • divtb.mgt.data: TB/TBmgt

  • divssb.mgt.data: SSB/SSBmgt

  • divf.mgt.data: F/Fmgt

  • diver.mgt.data: ER/ERmgt

  • divbpref.mgt.data: B/Bmgtpref

  • divupref.mgt.data: U/Umgtpref

  • cpair.data: Cpair

  • tac.data: TAC

  • cadv.data: Cadvised

  • survb.data: survB

  • cpue.data: CPUE

  • effort.data: EFFORT

References

Ricard, D., Minto, C., Jensen, O.P. and Baum, J.K. (2012) Evaluating the knowledge base and status of commercially exploited marine species with the RAM Legacy Stock Assessment Database. Fish and Fisheries 13 (4) 380-398. <doi:10.1111/j.1467-2979.2011.00435.x>

See also

www.ramlegacy.org

www.github.com/ropensci/ramlegacy

www.github.com/ropensci/ramlegacy/issues

Author

Maintainer: Kshitiz Gupta kshtzgupta1@berkeley.edu [copyright holder]

Authors:

  • Carl Boettiger cboettig@gmail.com (http://orcid.org/0000-0002-1642-628X) [copyright holder]

Other contributors:

  • Sam Albers sam.albers@gmail.com (https://orcid.org/0000-0002-9270-7884) [reviewer]

  • Jamie Afflerbach afflerbach@nceas.ucsb.edu (https://orcid.org/0000-0002-5215-9342) [reviewer]

  • RAM Legacy Stock Assessment Database [data contributor]