Supported Applications
GATK
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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.
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Usage
To list all executables provided by GATK, run:$ biogrids-list gatk
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Installation
Use the following command to install this title with the CLI client:$ biogrids-cli install gatk
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.
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*Full citation information available through
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Citation Note
The ideal way to cite the GATK is to use all as a triple citation.
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Keywords
DNA-Sequencing, Germline SNP Detection, High-throughput sequencing, RNA-Sequencing, WGS Analysis
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Default Versions
Linux 64:  4.5.0.0 (1.0 GB)
OS X INTEL:  4.5.0.0 (829.3 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) -
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)
Developers
Eric Banks