arp2gen

Specifying the name of the <em>`.arp'</em> arlequin genotype file. The argument must be a character string of the file name if it is located in the current working directory, or the file path (relative or absolute) if not.

infile


<code>arp2gen</code> allows simple file conversion from the arlequin genotype format to the genepop genotype format. Arlequin files can gave 2-digit or 3-digit allele records. No file size limit is imposed, however, system RAM is a limiting factor.


Allows the calculation of both genetic diversity partition
statistics, genetic differentiation statistics, and locus informativeness
for ancestry assignment.
It also provides users with various option to calculate
bootstrapped 95\% confidence intervals both across loci,
for pairwise population comparisons, and to plot these results interactively.
Parallel computing capabilities and pairwise results without
bootstrapping are provided.
Weir and Cockerham's 1984 F-statistics are also calculated.
Various plotting features are also provided, as well as Chi-square tests of
genetic heterogeneity are also provided.
Functionality for the calculation of various diversity parameters is
possible for RAD-seq derived SNP data sets containing thousands of marker loci.
A shiny application for the development of microsatellite multiplexes is
also available.

arp2gen: Fast and simple conversion of arlequin (.arp) genotype files to genepop files, form within the `R` environment.

Description

Usage

Arguments

Details