NAME

Bio::Tree::Statistics - Calculate certain statistics for a Tree

SYNOPSIS

Give standard usage here

DESCRIPTION

This object is a place to accumulate routines for calculating various tree statistics from population genetic and phylogenetic methods.

Currently Fu and Li's D is implemented. Tajima's D planned.

References forthcoming.

FEEDBACK

Mailing Lists

User feedback is an integral part of the evolution of this and other Bioperl modules. Send your comments and suggestions preferably to the Bioperl mailing list. Your participation is much appreciated.

bioperl-l@bioperl.org              - General discussion
http://bioperl.org/MailList.shtml  - About the mailing lists

Reporting Bugs

Report bugs to the Bioperl bug tracking system to help us keep track of the bugs and their resolution. Bug reports can be submitted via the web:

http://bugzilla.bioperl.org/

AUTHOR - Aaron Mackey

Email jason@bioperl.org

CONTRIBUTORS

Matt Hahn <matthew.hahn@duke.duke>

APPENDIX

The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _

new

Title   : new
Usage   : my $obj = new Bio::Tree::Statistics();
Function: Builds a new Bio::Tree::Statistics object 
Returns : Bio::Tree::Statistics
Args    :

fu_and_li_D

Title   : fu_and_li_D
Usage   : my $D = $statistics->fu_an_li_D($tree,$nummut);
Function:
          For this we assume that the tree is made up of
          Bio::Tree::AlleleNode's which contain markers and alleles
          each marker is a 'mutation' 
Returns : Fu and Li's D statistic for this Tree
Args    : $tree - Bio::Tree::TreeI which contains Bio::Tree::AlleleNodes