NAME
PJ::Database::Root - Perl extension for genomic annotations
SYNOPSIS
This is a dummy module which contains NOTHING. It serves as a beacon for
other Perl programs to find the path to genomic annotations.
require PJ::Database::Root;
my $path = $INC{'PJ/Database/Root.pm'};
$path = s/Root.pm$//;
$path2genome = $path . $genome_name; # mm9, rn4, etc.
DESCRIPTION
Program such as region_analysis.pl requires genomic annotations to properly assign functions to regions generated from peak or differential site detection program such as diffReps.
The genomic annotations, such as coordinates of genebody, TSS, pericentromere are stored in text files. It is important for region_analysis.pl to find those files and perform operations on them.
The module PJ::Database::Root is simply an empty .pm file that does nothing. However, it is convenient to have this module so that its path can be extracted from %INC.
EXPORT
None by default.
SEE ALSO
diffReps - http://code.google.com/p/diffreps/
AUTHOR
Li Shen, <li.shen@mssm.edu>
COPYRIGHT AND LICENSE
Copyright (C) 2012 by Li Shen