Bamtools

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Revision as of 02:02, 10 August 2012 by Moskalenko (talk | contribs) (Text replace - "==Running the application using modules==" to "==Execution Environment and Modules==")
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Description

bamtools website  

BamTools is a project that provides both a C++ API and a command-line toolkit for reading, writing, and manipulating BAM (genome alignment) files.

Available versions

  • 2.1.0

Execution Environment and Modules

To use bamtools with the environment modules system at HPC the following commands are available:

Get module information for bamtools: 

$module spider bamtools

Load the default application module: 

$module load bamtools

The modulefile for this software adds the directory with executable files to the shell execution PATH and sets the following environment variables:

  • HPC_BAMTOOLS_DIR - directory where bamtools is located.
  • HPC_BAMTOOLS_BIN - executable directory
  • HPC_BAMTOOLS_INC - includes directory

Additional tools

We also provide small tools that depend on bamtools or are built against it within this module.

  • bamaddrg (2012-01-27 build against bamtools 0.9.4).




Retrieved from "https://help.rc.ufl.edu/mediawiki/index.php?title=Bamtools&oldid=7573"