Mercurial > repos > brad-chapman > bam_to_bigwig

diff bam_to_bigwig/README.txt @ 0:d2c1af657010

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Migrated tool version 0.0.1 from old tool shed archive to new tool shed repository
author brad-chapman
date Tue, 07 Jun 2011 16:25:46 -0400
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+++ b/bam_to_bigwig/README.txt	Tue Jun 07 16:25:46 2011 -0400
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+Convert a BAM file into a BigWig coverage file. This can be used directly from 
+Galaxy for display at UCSC. The advantage over standard Wiggle format is that 
+the data is stored in a compressed format and can be retrieved by genome
+region. This allows you to view regions of arbitrarily large Wiggle file data
+at UCSC while avoiding the upload costs.
+
+The latest version of the bam_to_wiggle.py script is available at:
+
+https://github.com/chapmanb/bcbb/blob/master/nextgen/scripts/bam_to_wiggle.py
+
+This requires:
+
+Python2, version 2.6 or better
+pysam (http://code.google.com/p/pysam/)
+wigToBigWig from UCSC (http://hgdownload.cse.ucsc.edu/admin/exe/)