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CGAT on Biowulf

The CGAT code collection has grown out of the work in comparative genomics by the Ponting group in the last decade. Now, CGAT has added functionality to do next-generation sequencing analysis.

The CGAT Code collection has two components. The first component is a collection of scripts, the CGAT tools. The second component is a collection of pipelines.

CGAT uses environment modules. Type

module load CGAT
Submitting a CGAT batch job

Create a PBS batch script cgat.sh:

Then submit the job:

$ qsub -l nodes=1:c16 cgat.sh
Documentation