On September 22nd OSC will be switching to Slurm for job scheduling and resource management on the Pitzer Cluster, along with the deployment of the new Pitzer hardware. We are in the process of updating the example job scripts for each software. If a Slurm example is not yet available, please consult our general Slurm information page or contact OSC help.

bcftools

bcftools is a set of utilities that manipulate variant calls in the Variant Call Format (VCF) and its binary counterpart BCF.

Availability and Restrictions

Versions

The following versions of bcftools are available on OSC clusters:

Version Owens Pitzer
1.3.1 X*  
1.9   X*
* Current default version

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

Access

bcftools is available to all OSC users. If you have any questions, please contact OSC Help.

Publisher/Vendor/Repository and License Type

Genome Research Ltd., Open source

Usage

Usage on Owens

Set-up

To configure your environment for use of bcftools, run the following command: module load bcftools. The default version will be loaded. To select a particular bcftools version, use module load bcftools/version. For example, use module load bcftools/1.3.1 to load bcftools 1.3.1.

Usage on Pitzer

Set-up

To configure your environment for use of bcftools, run the following command: module load bcftools. The default version will be loaded.

Further Reading

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