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GATK

  • Description

    (Genome Analysis Toolkit) a software package developed to analyze high-throughput sequencing data capable of taking on projects of any size with a primary focus on variant discovery, genotyping, and data quality assurance.

  • Usage

    To list all executables provided by GATK, run: $ biogrids-list gatk Copy to clipboard

  • Installation

    Use the following command to install this title with the CLI client: $ biogrids-cli install gatk Copy to clipboard Available operating systems: Linux 64, OS X INTEL

  • Primary Citation*

    A. McKenna, M. Hanna, E. Banks, A. Sivachenko, K. Cibulskis, A. Kernytsky, K. Garimella, D. Altshuler, S. Gabriel, M. Daly, and M. DePristo.. 2010. The Genome Analysis Toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data. GENOME RESEARCH. 20(9): 1297.


    • *Full citation information available through

  • Citation Note

    The ideal way to cite the GATK is to use all as a triple citation.

  • Keywords

    DNA-Sequencing, Germline SNP Detection, High-throughput sequencing, RNA-Sequencing, WGS Analysis

  • Default Versions

    Linux 64:  4.6.2.0 (750.7 MB)
    OS X INTEL:  4.6.2.0 (750.7 MB)

  • Other Versions

      Linux 64:

      3.1-1 (56.7 MB) , 3.4-46 (56.3 MB) , 3.8.1.0 (15.1 MB) , 4.0.1.1 (565.5 MB) , 4.1.1.0 (425.8 MB) , 4.1.4.1 (440.3 MB) , 4.1.7.0 (3.5 GB) , 4.2.5.0 (502.3 MB) , 4.3.0.0 (942.0 MB) , 4.4.0.0 (1004.3 MB) , 4.5.0.0 (1.0 GB) , 4.6.1.0 (1.0 GB)

    • OS X INTEL:

      3.8.1.0 (15.1 MB) , 4.0.1.1 (526.8 MB) , 4.1.1.0 (425.8 MB) , 4.1.4.1 (440.0 MB) , 4.1.7.0 (446.0 MB) , 4.2.5.0 (502.3 MB) , 4.3.0.0 (699.7 MB) , 4.4.0.0 (783.9 MB) , 4.5.0.0 (829.3 MB) , 4.6.1.0 (787.0 MB)

  • Developers

    Eric Banks

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