get_kegg_orgn: Search KEGG identifiers for a given species name.

In khughitt/EuPathDB: Provides access to pathogen annotation resources available on EuPathDB databases

Search KEGG identifiers for a given species name.

Description

KEGG identifiers do not always make sense. For example, how am I supposed to remember that Leishmania major is lmj? This takes in a human readable string and finds the KEGG identifiers that match it.

Usage

get_kegg_orgn(species = "Leishmania", short = TRUE)

Arguments

species	Search string (Something like 'Homo sapiens').
short	Only pull the orgid?

Value

Data frame of possible KEGG identifier codes, genome ID numbers, species, and phylogenetic classifications.

See Also

RCurl

Examples

## Not run: 
 fun = get_kegg_orgn('Canis')
 ## >     Tid     orgid      species                   phylogeny
 ## >  17 T01007   cfa Canis familiaris (dog) Eukaryotes;Animals;Vertebrates;Mammals

## End(Not run)

khughitt/EuPathDB documentation built on Nov. 4, 2023, 4:19 a.m.