gl.define.pop: Defines a new population in a genlight object for specified...

In dartR: Importing and Analysing 'SNP' and 'Silicodart' Data Generated by Genome-Wide Restriction Fragment Analysis

Defines a new population in a genlight object for specified individuals

Description

The script reassigns existing individuals to a new population and removes their existing population assignment.

The script returns a genlight object with the new population assignment.

Usage

gl.define.pop(x, ind.list, new, verbose = NULL)

Arguments

x	Name of the genlight object containing SNP genotypes [required].
ind.list	A list of individuals to be assigned to the new population [required].
new	Name of the new population [required].
verbose	Verbosity: 0, silent or fatal errors; 1, begin and end; 2, progress log; 3, progress and results summary; 5, full report [default 2 or as specified using gl.set.verbosity].

Value

A genlight object with the redefined population structure.

Author(s)

Custodian: Arthur Georges – Post to https://groups.google.com/d/forum/dartr

Examples

popNames(testset.gl)
gl <- gl.define.pop(testset.gl, ind.list=c('AA019073','AA004859'), 
new='newguys')
popNames(gl)
indNames(gl)[pop(gl)=='newguys']

dartR documentation built on June 8, 2023, 6:48 a.m.