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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.

homepage: http://www.broadinstitute.org/gsa/wiki/index.php/The_Genome_Analysis_Toolkit

version versionsuffix toolchain
1.0.5083 system
2.5-2 -Java-1.7.0_10 system
2.6-5 -Java-1.7.0_10 system
2.7-4 -Java-1.7.0_10 system
2.7-4 system
2.8-1 -Java-1.7.0_10 system
3.0-0 -Java-1.7.0_10 system
3.3-0 -Java-1.7.0_21 system
3.3-0 -Java-1.7.0_80 system
3.3-0 -Java-1.8.0_66 system
3.5 -Java-1.8.0_66 system
3.5 -Java-1.8.0_74 system
3.6 -Java-1.8.0_92 system
3.7 -Java-1.8.0_112 system
3.8-0 -Java-1.8.0_144 system
4.0.1.2 -Java-1.8 system
4.0.10.0 -Python-3.6.6 foss/2018b
4.0.12.0 -Python-3.6.6 foss/2018b
4.0.4.0 -Python-2.7.14 intel/2018a
4.0.4.0 -Python-3.6.4 intel/2018a
4.0.5.1 -Python-3.6.4 foss/2018a
4.0.7.0 -Python-2.7.14 intel/2018a
4.0.7.0 -Python-3.6.4 intel/2018a
4.0.8.1 -Python-2.7.15 foss/2018b
4.0.8.1 -Python-3.6.6 foss/2018b
4.1.0.0 -Python-3.6.6 foss/2018b
4.1.2.0 -Java-1.8 GCCcore/8.2.0
4.1.3.0 -Java-1.8 GCCcore/8.3.0
4.1.4.1 -Java-1.8 GCCcore/8.3.0
4.1.4.1 -Java-11 GCCcore/8.3.0
4.1.5.0 -Java-1.8 GCCcore/9.3.0
4.1.5.0 -Java-11 GCCcore/9.3.0
4.1.8.1 -Java-1.8 GCCcore/9.3.0
4.2.0.0 -Java-1.8 GCCcore/10.2.0
4.2.0.0 -Java-11 GCCcore/10.2.0
4.2.3.0 -Java-11 GCCcore/11.2.0
4.2.5.0 -Java-11 GCCcore/11.2.0
4.2.6.1 -Java-11 GCCcore/10.3.0
4.2.6.1 -Java-11 GCCcore/11.2.0
4.3.0.0 -Java-11 GCCcore/11.3.0
4.4.0.0 -Java-17 GCCcore/12.2.0
4.4.0.0 -Java-17 GCCcore/12.3.0
4.5.0.0 -Java-17 GCCcore/12.3.0

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