Given a location (available from data{locations}) this function
returns all host-parasite associations in that location.
Usage
findLocation(
location = NULL,
group = NULL,
citation = FALSE,
hostState = NULL,
speciesOnly = FALSE,
validateHosts = FALSE,
removeDuplicates = FALSE
)Arguments
- location
Location of host-parasite interaction.
- group
Parasite group - Cestodes, Acanthocephalans, Monogeneans, Nematodes, Trematodes, or Turbellarian etc. (Turb)
- citation
Boolean. Should the output include the citation link and the number of supporting citations? default is FALSE
- hostState
number corresponding to one of six different host states. The default value is NULL and includes all host states.
- speciesOnly
boolean flag to remove host and parasite species where data are only available at genus level (default = FALSE)
- validateHosts
boolean flag to check host species names against Catalogue of Life information and output taxonomic information (default = FALSE)
- removeDuplicates
(boolean) should duplicate host-parasite combinations be removed? (default is FALSE)
Value
Three (or five) column data.frame containing host species,
parasite species (shortened name and full name), and citation link and
number of citations (if citation = TRUE), with each row corresponding
to an occurrence of a parasite species on a host species.
Details
hostState can take values 1-6 corresponding to if the recorded
host was found
(1) "In the wild"
(2) "Zoo captivity"
(3) "Domesticated"
(4) "Experimental"
(5) "Commercial source"
(6) "Accidental infestation"
References
Gibson, D. I., Bray, R. A., & Harris, E. A. (Compilers) (2005). Host-Parasite Database of the Natural History Museum, London. <http://www.nhm.ac.uk/research-curation/scientific-resources/taxonomy-systematics/host-parasites/>