getSelectedTaxonNames {PhyloProfile} | R Documentation

## Get a subset of input taxa based on a selected taxonomy rank

### Description

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).

### Usage

    getSelectedTaxonNames(inputTaxonIDs, rank, higherRank, higherID,
        higherName)

### Arguments

`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.

### Value

A data frame contains ncbi IDs and names of taxa from the input taxon list that belong to the selected supertaxon.

### Author(s)

Vinh Tran tran@bio.uni-frankfurt.de

### Examples

    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)

[Package PhyloProfile version 1.2.8 Index]