SAMStat: monitoring biases in next generation sequencing data

Abstract

MOTIVATION The sequence alignment/map format (SAM) is a commonly used format to store the alignments between millions of short reads and a reference genome. Often certain positions within the reads are inherently more likely to contain errors due to the protocols used to prepare the samples. Such biases can have adverse effects on both mapping rate and… (More)
DOI: 10.1093/bioinformatics/btq614

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