Bio::ToolBox - Tools for querying and analysis of genomic data DESCRIPTION The Bio::ToolBox libraries provide a unified, abstracted interface to multiple common bioinformatic file formats, gene annotation (bed, gff, gtf, UCSC formats), and data storage formats (bam, bigWig, bigBed, USeq). Included are several high-quality end-user scripts for bioinformatic analysis, including working with gene annotation, collecting data scores from a variety of modern file formats relative to genomic annotation, and conversion between common file formats. REQUIREMENTS These are Perl modules and scripts. They require Perl and a command-line environment. They have been developed and tested on Mac OS X and linux; Microsoft Windows compatability is not tested nor guaranteed. INSTALLATION Installation is simple with the Perl Module::Build incantation. perl ./Build.PL ./Build ./Build test ./Build install Released versions may be obtained though the CPAN repository using your favorite package manager. ADDITIONAL MODULES To make the installation as lean and simple as possible, only the minimal additional Perl modules are required, while the remainder are only recommended. These can be installed subsequently as necessary as the need arises. Most of the database adapters, including those for Bam, BigWig, and BigBed, require external library dependencies that must be compiled separately. See the respective modules for installation instructions. Most scripts should fail gently with warnings about missing modules. Advanced installation notes are provided at the project repository. PROJECT WEBSITE The BioToolBox project repository may be found at https://github.com/tjparnell/biotoolbox. LICENSE This package is free software; you can redistribute it and/or modify it under the terms of the Artistic License 2.0. For details, see the full text of the license in the file LICENSE. This package is distributed in the hope that it will be useful, but it is provided “as is” and without any express or implied warranties. For details, see the full text of the license in the file LICENSE.