batchjacklociArp

A vector indicating which locus or loci to remove from the final output file. Loci should be indicated as numbers according to the order in which they are listed in the input file (e.g. c(1,3) would remove the first and third loci).

rm.loci

This function removes a specified subset of loci from all Arlequin (extension .arp) files in the working directory and creates new input .arp files. It also creates a Arlequin batch file (.arb) to allow batch analysis.

~kwd1

~kwd2

There are two main purposes to this package. The first is
to allow batch conversion of Genepop (Rousset 2008) input files
for use with Arlequin (Excoffier and Lischer 2010), which has a
simple GUI to analyze batch files. Two commonly used simulation
software, BottleSim (Kuo & Janzen 2003) and Easypop (Balloux
2001) produce Genepop output files that can be analyzed this
way. There are also functions to convert to and from BottleSim
format, to quickly produce allele frequency tables or to
convert a file directly for use in ordination analyses (e.g.
principal component analysis). This package also includes
functions to calculate allele rarefaction curves, confidence
intervals on heterozygosity and allelic richness with
resampling strategies (bootstrap and jackknife).

batchjacklociArp: Remove a subset of loci from all Arlequin project files (extension .arp) in dir

Description

Usage

Arguments

Value

Details

References

See Also