Mercurial > repos > vladimir-daric > ebio_deseq
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author | vladimir-daric |
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date | Fri, 25 Apr 2014 09:40:38 -0400 |
parents | 8c5de60b3c04 |
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This program uses the `DESeq`_ R library to realize a differential analysis on feature count data from RNA-Seq experiments. As input you have to provide a genomic features count date, such as provided by `HTSeq-count`_. The script performs a normalisation of data and then the differential analysis (negative binomial test). Several plots are produced. The wrapper program (DESeq_diff_ann_wrapper.py) and R library GetOptions.R are 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. Authors : Vladimir Daric (eBio), Rachel Legendre (eBio), Coline Billerey (eBio), Alban Ott (IGM), Claire Wallon (eBio) test ! Licenses: If **DESeq** is used to obtain results for scientific publications it should be cited as [1]. References: [1] Anders, S and Huber, W (2010): `Differential expression analysis for sequence count data`. Contact: ebio@igmors.u-psud.fr .. _DESeq: http://bioconductor.org/packages/release/bioc/html/DESeq.html .. _HTSeq: http://www-huber.embl.de/users/anders/HTSeq/doc/count.html .. _eBio: http://ebio.u-psud.fr/