gl2geno: Converts a genlight object to geno format from package LEA

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

Converts a genlight object to geno format from package LEA

Description

The function converts a genlight object (SNP or presence/absence i.e. SilicoDArT data) into a file in the 'geno' and the 'lfmm' formats from (package LEA).

Usage

gl2geno(x, outfile = "gl_geno", outpath = tempdir(), verbose = NULL)

Arguments

x	Name of the genlight object containing the SNP or presence/absence (SilicoDArT) data [required].
outfile	File name of the output file [default 'gl_geno'].
outpath	Path where to save the output file [default tempdir(), mandated by CRAN]. Use outpath=getwd() or outpath='.' when calling this function to direct output files to your working directory.
verbose	Verbosity: 0, silent or fatal errors; 1, begin and end; 2, progress log; 3, progress and results summary; 5, full report [default 2, unless specified using gl.set.verbosity].

Value

returns no value (i.e. NULL)

Author(s)

Custodian: Luis Mijangos (Post to https://groups.google.com/d/forum/dartr)

Examples

# SNP data
gl2geno(testset.gl)
# Tag P/A data
gl2geno(testset.gs)

green-striped-gecko/dartR documentation built on Sept. 7, 2024, 4:15 a.m.