accessions_from_spp {geneHummus}

Extract the accession ids (XP accession) for a given organism

Description

Filter a dataframe of protein ids and return the accessions for a given species or organism.

Usage

accessions_from_spp(my_accessions, spp)

Arguments

my_accessions

A data frame with accession protein ids and organisms

spp

A string with the scientific name of the species or organism.

Value

A string vector with protein accession (XP accession, RefSeq database)

Author(s)

Jose V. Die

See Also

getAccessions to create the data frame with accession id and organism for each protein identifier.

Examples

my_prots = data.frame(accession = c("XP_014620925", "XP_003546066", 
   "XP_025640041", "XP_019453956", "XP_006584791", "XP_020212415", 
   "XP_017436622", "XP_004503803", "XP_019463844"),
   organism =  c("Glycine max", "Glycine max", "Arachis hypogaea",
   "Lupinus angustifolius", "Glycine max", "Cajanus cajan", 
   "Vigna angularis", "Cicer arietinum", "Lupinus angustifolius"))
   
accessions_from_spp(my_prots, "Glycine max")