dartR (version 1.9.9.1)

gl.keep.loc: Remove all but the specified loci from a genelight {adegenet} object

Description

The script returns a genlight object with the all but the specified loci deleted.

Usage

gl.keep.loc(x, loc.list = NULL, first = NULL, last = NULL, verbose = NULL)

Arguments

x

-- name of the genlight object containing SNP genotypes or presence/absence data [required]

loc.list

-- a list of loci to be kept [required, if loc.range not specified]

first

-- first of a range of loci to be kept [required, if loc.list not specified]

last

-- last of a range of loci to be kept [if not specified, last locus in the dataset]

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 reduced data

Examples

# NOT RUN {
# SNP data
  gl2 <- gl.keep.loc(testset.gl, loc.list=c("100051468|42-A/T", "100049816-51-A/G"))
# Tag P/A data
  gs2 <- gl.keep.loc(testset.gs, loc.list=c("20134188","19249144"))
# }