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Genome Analysis Tool Kit (GATK) is produced by the Broad Institute.  GATK offers a wide variety of tools but focuses primarily on variant discovery and genotyping.


Usage on Bridges-2

To see what versions of GATK are available and if there is more than one, which is the default, along with some help, type

module spider gatk

To use GATK, include a command like this in your batch script or interactive session to load the GATK module: (note ‘module load’ is case-sensitive):

module load GATK