diff README.rst @ 0:c34c364ce75d

First commit

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+riboseqr_wrapper
+----------------
+`riboSeqR <http://bioconductor.org/packages/3.0/bioc/html/riboSeqR.html>`_
+integration for `Galaxy <http://galaxyproject.org/>`_ and
+`RiboGalaxy <http://ribogalaxy.ucc.ie/>`_.
+
+Included tools
+..............
+In the order they are run
+
+1. Prepare riboSeqR Input - Prepare riboSeqR format input files from SAM format alignment files.
+   The SAM format files should be obtained by aligning Ribo-Seq and RNA-Seq data to the transcriptome.
+   (RNA-Seq data is optional but required for Differential translation analysis).
+
+2. Triplet Periodicity - Plot triplet periodicity for different read lengths.
+
+3. Metagene Analysis
+
+4. Plot Ribosome Profile
+
+   [OR]
+
+   Differential Translation Analysis - Get Ribo and RNA-Seq counts with riboSeqR. Perform differential
+   translation analysis with baySeq.
+
+Dependencies
+............
+Tested on Ubuntu Linux 14.04 LTS, 64-bit. Dependencies should install automatically on Linux x86_64.
+
+**R** ``3.1.2``
+
+**riboSeqR** ``1.0.5``
+
+**baySeq** ``2.0.50``
+
+**rpy2** ``2.3.10``