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gatk-software

Genome Analysis ToolKit (GATK)

GATK offers a wide variety of tools with a primary focus on variant discovery and genotyping.

Information

Usage

See which versions of GATK are available:

$ module avail gatk

Load one version into your environment and run it:

$ module load gatk/4.0.10.1
$ gatk

Installation

Notes from the sysadmin during installation:

$ cd /tmp
$ wget https://github.com/broadinstitute/gatk/releases/download/4.0.10.1/gatk-4.0.10.1.zip
$ unzip gatk-4.0.10.1.zip
$ sudo cp -r gatk-4.0.10.1 /export/apps/gatk/4.0.10.1
gatk-software.txt · Last modified: 2018/10/15 16:25 by aorth