Supported Applications

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.
Installation
Use the following command to install this title with the CLI client: $ biogrids-cli install gatk
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: 4.1.4.1
OS X INTEL: 4.1.4.1
Other Versions
- OS X INTEL:
  4.1.7.0, 4.1.1.0, 4.0.1.1, 3.8.1.0
Developers

Eric Banks