| gl2genalex {dartR.base} | R Documentation |
Converts a genlight object into a format suitable for input to genalex
Description
The output csv file contains the snp data and other relevant lines suitable for genalex. This function is a wrapper for genind2genalex (package poppr).
Usage
gl2genalex(
x,
outfile = "genalex.csv",
outpath = NULL,
overwrite = FALSE,
verbose = NULL
)
Arguments
x |
Name of the genlight object containing SNP data [required]. |
outfile |
Name of the output file (including extension) [default 'genalex.csv']. |
outpath |
Path where to save the output file [default global working directory or if not specified, tempdir()]. |
overwrite |
If FALSE and filename exists, then the file will not be overwritten [default FALSE]. |
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
returns no value (i.e. NULL)
Author(s)
Custodian: Luis Mijangos, Author: Katrin Hohwieler, wrapper Arthur Georges (Post to https://groups.google.com/d/forum/dartr)
References
Peakall, R. and Smouse P.E. (2012) GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research-an update. Bioinformatics 28, 2537-2539. http://bioinformatics.oxfordjournals.org/content/28/19/2537
See Also
Other linker:
gl2bayesAss(),
gl2bayescan(),
gl2bpp(),
gl2demerelate(),
gl2eigenstrat(),
gl2faststructure(),
gl2gds(),
gl2genepop(),
gl2geno(),
gl2gi(),
gl2hiphop(),
gl2phylip(),
gl2plink(),
gl2related(),
gl2sa(),
gl2structure(),
gl2treemix(),
gl2vcf()
Examples
gl2genalex(testset.gl, outfile='testset.csv', outpath=tempdir())