====== Genome Analysis ToolKit (GATK) ======

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

===== Information =====

  * Latest Version: 4.0.10.1
  * Added: May, 2014
  * Updated: October, 2018
  * Link: https://software.broadinstitute.org/gatk/

===== Usage =====

See which versions of GATK are available:
<code>$ module avail gatk</code>

Load one version into your environment and run it:
<code>$ module load gatk/4.0.10.1
$ gatk</code>

===== Installation ======
Notes from the sysadmin during installation:

<code>$ 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</code>