- AUTHOR - Jason Stajich
Bio::PopGen::PopStats - A collection of methods for calculating statistics about a population or sets of populations
use Bio::PopGen::PopStats; my $stats = Bio::PopGen::PopStats->new(); # add -haploid => 1 # to process haploid data
Calculate various population structure statistics, most notably Wright's Fst.
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AUTHOR - Jason Stajich
Matthew Hahn, matthew.hahn-at-duke.edu
The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _
Title : new Usage : my $obj = Bio::PopGen::PopStats->new(); Function: Builds a new Bio::PopGen::PopStats object Returns : an instance of Bio::PopGen::PopStats Args : -haploid => 1 (if want to use haploid calculations)
Title : haploid_status Usage : $obj->haploid_status($newval) Function: Boolean value for whether or not to do haploid or diploid calculations, where appropriate Returns : Boolean Args : on set, new boolean value optional)
Title : Fst Usage : my $fst = $stats->Fst(\@populations,\@markernames) Function: Calculate Wright's Fst based on a set of sub-populations and specific markers Returns : Fst value (a value between 0 and 1) Args : Arrayref of populations to process Arrayref of marker names to process Note : Based on diploid method in Weir BS, Genetics Data Analysis II, 1996 page 178.