getSelectedTaxonNames {PhyloProfile} | R Documentation |
Get a subset of taxon ncbi IDs and names from an input list of taxa based on a selected supertaxon (identified by its taxonomy rank and supertaxon name or supertaxon ID).
getSelectedTaxonNames(inputTaxonIDs, rank, higherRank, higherID, higherName)
inputTaxonIDs |
list of input taxon IDs (e.g. c("10116", "122586")) |
rank |
taxonomy rank of input taxa (e.g. "species") |
higherRank |
selected taxonomy rank (e.g. "phylum") |
higherID |
supertaxon ID (e.g. 7711). NOTE: either supertaxon ID or name is required, not neccessary to give both. |
higherName |
supertaxon name (e.g. "Chordata"). NOTE: either supertaxon ID or name is required, not neccessary to give both. |
A data frame contains ncbi IDs and names of taxa from the input taxon list that belong to the selected supertaxon.
Vinh Tran tran@bio.uni-frankfurt.de
inputTaxonIDs <- c("10116", "122586", "123851", "13616", "188937", "189518", "208964", "224129", "224324", "237631", "243230") rank <- "species" higherRank <- "phylum" higherID <- 7711 getSelectedTaxonNames(inputTaxonIDs, rank, higherRank, higherID, NULL) higherName <- "Chordata" getSelectedTaxonNames(inputTaxonIDs, rank, higherRank, NULL, higherName)