iPyrad.alleles.loci2fasta: iPyrad alleles.loci file to fasta alignments conversion

In gehara/PipeMaster: Building and Simulating Coalescent models.

iPyrad alleles.loci file to fasta alignments conversion

Description

Converts iPyrad alleles.loci file to fasta alignmets. The alleles.loci is a specific iPyrad format that contains the phased alleles for all loci. To get this file use the * option in the output_formats parameter of iPyrad.

Usage

iPyrad.alleles.loci2fasta(alleles.loci, output.dir)

Arguments

alleles.loci	The name of the alleles.loci file as a character string. The alleles.loci file must be in the working directory.
output.dir	The path to the output directory to write the fasta alignments.

Value

Writes one fasta alignment per locus in the output.dir

Author(s)

Marcelo Gehara (Thanks Gustavo Cabanne for the help)

gehara/PipeMaster documentation built on April 19, 2024, 8:14 a.m.