getCommonAncestor: Get all taxa that share a common ancestor

In BIONF/PhyloProfile: PhyloProfile

Get all taxa that share a common ancestor

Description

Identify the common ancestor for a selected taxa and return a list of all taxa that have that common ancestor from an large input taxa set.

Usage

getCommonAncestor(inputTaxa = NULL, inGroup = NULL, taxDB = NULL)

Arguments

inputTaxa	ID list of all input taxa (e.g. "ncbi12345")
inGroup	ID list of selected taxa used for identify the common ancestor (e.g.: "ncbi55555")
taxDB	Path to the taxonomy DB files

Value

A list containing the taxonomy rank and name of the common ancestor, together with a dataframe storing the full taxonomy info of all taxa that share that corresponding common ancestor.

Author(s)

Vinh Tran ([e-mail])

Examples

inputTaxa <- c("ncbi34740", "ncbi9606", "ncbi374847", "ncbi123851",
    "ncbi5664", "ncbi189518", "ncbi418459", "ncbi10116", "ncbi284812",
    "ncbi35128", "ncbi7070")
inGroup <-  c("ncbi9606", "ncbi10116")
getCommonAncestor(inputTaxa, inGroup)

BIONF/PhyloProfile documentation built on Dec. 18, 2024, 7:33 a.m.