dartR.base (version 1.0.5)

gl.define.pop: 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)

Value

A genlight object with the redefined population structure.

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].

Author

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

See Also

Other data manipulation: 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.merge.pop(), 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

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