@article{530fd5b3591740cfa040ed9319cfa05f,
title = "SentIeon DNaSeq variant calling workflow demonstrates strong computational performance and accuracy",
abstract = "As reliable, efficient genome sequencing becomes ubiquitous, the need for similarly reliable and efficient variant calling becomes increasingly important. The Genome Analysis Toolkit (GATK), maintained by the Broad Institute, is currently the widely accepted standard for variant calling software. However, alternative solutions may provide faster variant calling without sacrificing accuracy. One such alternative is Sentieon DNASeq, a toolkit analogous to GATK but built on a highly optimized backend. We conducted an independent evaluation of the DNASeq single-sample variant calling pipeline in comparison to that of GATK. Our results support the near-identical accuracy of the two software packages, showcase optimal scalability and great speed from Sentieon, and describe computational performance considerations for the deployment of DNASeq.",
keywords = "Benchmarking, DNASeq, GATK, Sentieon, Variant calling",
author = "Kendig, {Katherine I.} and Saurabh Baheti and Bockol, {Matthew A.} and Drucker, {Travis M.} and Hart, {Steven N.} and Heldenbrand, {Jacob R.} and Mikel Hernaez and Hudson, {Matthew E.} and Kalmbach, {Michael T.} and Klee, {Eric W.} and Mattson, {Nathan R.} and Ross, {Christian A.} and Morgan Taschuk and Wieben, {Eric D.} and Mathieu Wiepert and Wildman, {Derek E.} and Mainzer, {Liudmila S.}",
note = "Publisher Copyright: Copyright {\textcopyright} 2019 Kendig, Baheti, Bockol, Drucker, Hart, Heldenbrand, Hernaez, Hudson, Kalmbach, Klee, Mattson, Ross, Taschuk, Wieben, Wiepert, Wildman and Mainzer. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.",
year = "2019",
doi = "10.3389/fgene.2019.00736",
language = "English (US)",
volume = "10",
journal = "Frontiers in Genetics",
issn = "1664-8021",
publisher = "Frontiers Media SA",
number = "JUL",
}