GATK¶
The GATK is a structured software library that makes writing efficient analysis tools using next-generation sequencing data very easy, and second it's a suite of tools for working with human medical resequencing projects such as 1000 Genomes and The Cancer Genome Atlas. These tools include things like a depth of coverage analyzers, a quality score recalibrator, a SNP/indel caller and a local realigner.
Environment Modules¶
Run module spider GATK to find out what environment modules are available for this application.
System Variables¶
- HPC_GATK_DIR - installation directory