compare.fitted.fstats

Compare fitted f2, f3 and f4 f-statistics of an admixture graph with estimated ones

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

compare.fitted.fstats function

<dl><dt>fstats</dt>
<dd>Object of class fstats containing estimates of fstats (as obtained with compute.fstats)</dd>
<dt>fitted.graph</dt>
<dd>Object of class fitted graph (as obtained with fit.graph function).</dd>
<dt>n.worst.stats</dt>
<dd>The number of worst statistics to be displayed in the terminal</dd></dl>

Arguments

Compare fitted f2, f3 and f4 f-statistics of an admixture graph with estimated ones — compare.fitted.fstats

<dl>

<dt>fstats</dt>
<dd>Object of class fstats containing estimates of fstats (as obtained with compute.fstats)</dd>


<dt>fitted.graph</dt>
<dd>Object of class fitted graph (as obtained with fit.graph function).</dd>


<dt>n.worst.stats</dt>
<dd>The number of worst statistics to be displayed in the terminal</dd>

</dl>

compare.fitted.fstats: Compare fitted f2, f3 and f4 f-statistics of an admixture graph with estimated ones

Description

Usage

Value

Arguments

Details

See Also