Recommendations for performance optimizations when using GATK3.8 and GATK4

Recommendations for performance optimizations when using GATK3.8 and GATK4

Abstract Background Use of the Genome Analysis Toolkit (GATK) continues to be the standard practice in genomic variant calling in both research and the clinic. Recently the toolkit has been rapidly evolving. Significant computational performance improvements have been introduced in GATK3.8 through c...

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Bibliographic Details
Main Authors: Jacob R Heldenbrand, Saurabh Baheti, Matthew A Bockol, Travis M Drucker, Steven N Hart, Matthew E Hudson, Ravishankar K Iyer, Michael T Kalmbach, Katherine I Kendig, Eric W Klee, Nathan R Mattson, Eric D Wieben, Mathieu Wiepert, Derek E Wildman, Liudmila S Mainzer
Format: Article
Language:English
Published: BMC 2019-11-01
Series:BMC Bioinformatics
Subjects:
GATK
Genomic variant calling
Best practices
Computational performance
Cluster computing
Parallelization
Online Access:http://link.springer.com/article/10.1186/s12859-019-3169-7

Internet

http://link.springer.com/article/10.1186/s12859-019-3169-7

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