diffReps::SlideWindow - class to deal with a sliding window.
diffReps::ChromaModSite - class to deal with chromatin modification site, inherited from SlideWindow.
diffReps::RegionList - class for a list of modification regions.
my $slideWindow = new diffReps::SlideWindow; my $site = new diffReps::ChromaModSite; my $regList = new diffReps::RegionList;
In order to perform differential analysis for ChIP-seq data, we need to define classes and methods that can retrieve short read counts for a designated window; perform statistics and book-keep important information.
None. This is OO designed.
diffReps::DiffRes
Mailing list: https://groups.google.com/forum/#!forum/diffreps-discuss
Web site: https://code.google.com/p/diffreps/
Li Shen, <shenli.sam@gmail.com>
Copyright (C) 2010-2013 by Li Shen
diffReps goes under GNU GPL v3: http://www.gnu.org/licenses/gpl.html
To install PJ::Genome, copy and paste the appropriate command in to your terminal.
cpanm
cpanm PJ::Genome
CPAN shell
perl -MCPAN -e shell install PJ::Genome
For more information on module installation, please visit the detailed CPAN module installation guide.