make.example.files

Write in the current directory example files corresponding to a sync (as obtained when parsing mpileup files with PoPoolation) and vcf (as obtained when parsing mpileup files with VarScan) gzipped files

Functions for the computation of f- and D-statistics (estimation of 'Fst', Patterson's 'F2', 'F3', 'F3*', 'F4' and D parameters) in population genomics studies from allele count or Pool-Seq read count data and for the fitting, building and visualization of admixture graphs. The package also includes several utilities to manipulate Pool-Seq data stored in standard format (e.g., such as 'vcf' files or 'rsync' files generated by the the 'PoPoolation' software) and perform conversion to alternative format (as used in the 'BayPass' and 'SelEstim' software). As of version 2.0, the package also includes utilities to manipulate standard allele count data (e.g., stored in 'TreeMix', 'BayPass' or 'SelEstim' format).

Mathieu Gautier

poolfstat

Computing f-Statistics and Building Admixture Graphs Based on
Allele Count or Pool-Seq Read Count Data

make.example.files function

<dl><dt>writing.dir</dt>
<dd>Directory where to copy example files (e.g., set writing.dir=getwd() to copy in the current working directory)</dd></dl>

Arguments

Create example files — make.example.files

<dl>

<dt>writing.dir</dt>
<dd>Directory where to copy example files (e.g., set writing.dir=getwd() to copy in the current working directory)</dd>

</dl>

make.example.files: Create example files

Description

Usage

Arguments

Examples