gl.merge.pop: Merges two or more populations in a dartR genlight object...

In dartR.base: Analysing 'SNP' and 'Silicodart' Data - Basic Functions

Merges two or more populations in a dartR genlight object into one population

Description

Individuals are assigned to populations based on the specimen metadata data file (csv) used with gl.read.dart(). This function assigns individuals from two nominated populations into a new single population. It can also be used to rename populations. The function works with both SNP and Tag P/A (silicoDArT) data. The function returns a genlight object with the new population assignments.

Usage

gl.merge.pop(x, old = NULL, new = NULL, verbose = NULL)

Arguments

x	Name of the genlight object [required].
old	A list of populations to be merged [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 new population assignments.

Author(s)

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

See Also

Other data manipulation: gl.define.pop(), gl.drop.ind(), gl.drop.loc(), gl.drop.pop(), gl.edit.recode.pop(), gl.impute(), gl.join(), gl.keep.ind(), gl.keep.loc(), gl.keep.pop(), gl.make.recode.ind(), gl.reassign.pop(), gl.recode.ind(), gl.recode.pop(), gl.rename.pop(), gl.sample(), gl.sim.genotypes(), gl.sort(), gl.subsample.ind(), gl.subsample.loc()

Examples

   gl <- gl.merge.pop(testset.gl, old=c('EmsubRopeMata','EmvicVictJasp'), new='Outgroup')
   

dartR.base documentation built on April 4, 2025, 2:45 a.m.