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. 2016 Jan 14;17:51. doi: 10.1186/s12864-016-2374-2

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© Samarakoon et al. 2016

Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. 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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Fig. 3 — Analysis of cnvScan filtration efficiency. a TP and FP count vs quality score used for filtration. ExCopyDepth score: default quality score of the CNV from ExCopyDepth. cnvScan score: CNVQ from in-house database (b) FP/TP ratio vs quality scores used for filtration (Comparison of cnvScan efficiency using ExCopyDepth predictions). FP/TP ratio: False positive CNV count/True positive CNV count. c Comparison of cnvScan efficiency of four CNV prediction programs. Scores used for filtration: default CNV quality score from prediction programs and CNVQ from in-house database. d Comparison of the cnvScan efficiency in reducing FDR of four prediction programs (FDR of prediction programs vs cnvScan scores). CoNIFER results were not filtered using cnvScan as CNVQ is not reported in the default state