Converts a genlight object to PLINK file format
This function exports a genlight object into PLINK format and save it into a file
gl2plink(x, outfile = "plink.csv", outpath = tempdir(), verbose = NULL)
x |
– name of the genlight object containing the SNP data [required] |
outfile |
– file name of the output file (including extension) [default plink.csv] |
outpath |
– path where to save the output file [default tempdir(), mandated by CRAN]. Use outpath=getwd() when calling this function or set.tempdir <- getwd() elsewhere in your script 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 or as specified using gl.set.verbosity] |
Bernd Guber (Post to https://groups.google.com/d/forum/dartr)
Purcell S, Neale B, Todd-Brown K, Thomas L, Ferreira MAR, Bender D, Maller J, Sklar P, de Bakker PIW, Daly MJ & Sham PC (2007). PLINK: a toolset for whole-genome association and population-based linkage analysis. American Journal of Human Genetics 81:551-575.
gl2plink(testset.gl)
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