Article
QQ-SNV: single nucleotide variant detection at low frequency by comparing the quality quantiles.
BMC bioinformatics - 10 Nov 2015
Van der Borght Koen, Thys Kim, Wetzels Yves, Clement Lieven, Verbist Bie, Reumers Joke, van Vlijmen Herman, Aerssens Jeroen
Abstract excerpt
BACKGROUND: Next generation sequencing enables studying heterogeneous populations of viral infections. When the sequencing is done at high coverage depth ("deep sequencing"), low frequency variants can be detected. Here we present QQ-SNV (http://sourceforge.net/projects/qqsnv), a logistic regression classifier model developed for the Illumina sequencing platforms that uses the quantiles of the quality scores, to...
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