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RNA-MATE
Description A computational pipeline based on a recursive mapping strategy for placing strand specific RNAseq data onto a reference genome. This pipeline provides an automatic and integrated way to align color-space sequencing data, collate this information and generate files for examining gene-expression data in a genomic context. Currently supported genomes are hg18 and mm9, however with the creation of custom junction libraries, this software can be used for any eukaryotic genome.
Licensing This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version. This package is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.
Documentation
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Support Bug reports and requests for functionality can be emailed to Nicole Cloonan. We will endeavour to respond to your emails as quickly as possible, but please remember that we are a small team of busy scientists.
Future Releases We are currently refining and improving RNA-MATE to provide added functionality. Bugs will be fixed and new versions released as needed. The planned release for v2.0 is mid 2009. We anticipate that version will have support for:
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