Convert a genlight object to format suitable for input to Bayescan
The output text file contains the snp data and relevant BAyescan command lines to guide input.
gl2bayescan(x, outfile = "bayescan.txt", 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 bayescan.txt] |
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 or as specified using gl.set.verbosity] |
Arthur Georges (Post to https://groups.google.com/d/forum/dartr)
Foll M and OE Gaggiotti (2008) A genome scan method to identify selected loci appropriate for both dominant and codominant markers: A Bayesian perspective. Genetics 180: 977-993.
gl2bayescan(testset.gl)
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