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biobambam is a package of bioinformatics tools for processing BAM format files. It has been installed on Breezy as a prerequisite for SMALT, but, the tools can be used independently. An initial test of bamtofastq found it an order of magnitude faster than the Picard Tools SamToFastq.
See the Software Versions page for details on the versions installed.
The software is distributed with the GNU General License Version 3.
Set up to use the biobambam package with (bash shell example):
Help for individual tools is available through the man page or by running the command with the -h argument. For example:
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Page created: 2014-02-20.