poppair_idx

Compute the index of the pairwise comparison from the idx of each pop

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

poppair_idx function

<dl><dt>idx_pop1</dt>
<dd>Integer giving the (0-indexed) index of the first pop</dd>
<dt>idx_pop2</dt>
<dd>Integer giving the (0-indexed) index of the second pop</dd>
<dt>nidx</dt>
<dd>Integer giving the total number of indexes (i.e., number of pops)</dd></dl>

Arguments

poppair_idx — poppair_idx

<dl>

<dt>idx_pop1</dt>
<dd>Integer giving the (0-indexed) index of the first pop</dd>


<dt>idx_pop2</dt>
<dd>Integer giving the (0-indexed) index of the second pop</dd>


<dt>nidx</dt>
<dd>Integer giving the total number of indexes (i.e., number of pops)</dd>

</dl>

poppair_idx: poppair_idx

Description

Value

Arguments

Details

Examples