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. 2014 Apr 12;15:104. doi: 10.1186/1471-2105-15-104

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Copyright © 2014 Cantarel et al.; licensee BioMed Central Ltd.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

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Overview of BAYSIC algorithm. Sets of variant calls produced from one or more programs are input in VCF format. Optionally, variants from third party databases are included as additional sources of information, e.g. dbSNP for normal variant calling and COSMIC for somatic mutation calling. False positive and false negative error rates are estimated using Markov Chain Monte Carlo simulation, and a posterior probability is calculated for each possible combination of agreement between the variant calling programs (see Methods). Finally, variants whose posterior probability is greater than the cutoff specified by the user (default value = 0.8) are output to generate a set of integrated variant calls.