BamTools

BamTools provides both a programmer's API and an end-user's toolkit for handling BAM files.

Availability and Restrictions

Versions

The following versions of BamTools are available on OSC clusters:

Version Oakley Owens
2.2.2 X  X*
2.4.0  X*  
* Current default version

You can use module spider bamtools to view available modules for a given machine. Feel free to contact OSC Help if you need other versions for your work.

Access

BamTools is available to all OSC users without restriction.

Publisher/Vendor/Repository and License Type

Derek Barnett, Erik Garrison, Gabor Marth, and Michael Stromberg/ Open Source

Usage

Usage on Oakley

Set-up

To configure your environment for use of BamTools, run the following command: module load bamtools. The default version will be loaded. To select a particular BamTools version, use module load bamtools/version. For example, use  module load bamtools/2.2.2 to load BamTools 2.2.2.

Usage on Owens

Set-up

To configure your environment for use of BamTools, run the following command: module load bamtools. The default version will be loaded. To select a particular BamTools version, use module load bamtools/version. For example, use module load bamtools/2.2.2 to load BamTools 2.2.2.

Further Reading

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