Error filtering, pair assembly and error correction for next-generation sequencing reads

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ID: 296101
2015
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Abstract
Abstract Motivation: Next-generation sequencing produces vast amounts of data with errors that are difficult to distinguish from true biological variation when coverage is low. Results: We demonstrate large reductions in error frequencies, especially for high-error-rate reads, by three independent means: (i) filtering reads according to their expected number of errors, (ii) assembling overlapping read pairs and (iii) for amplicon reads, by exploiting unique sequence abundances to perform error correction. We also show that most published paired read assemblers calculate incorrect posterior quality scores. Availability and implementation: These methods are implemented in the USEARCH package. Binaries are freely available at http://drive5.com/usearch. Contact: robert@drive5.com Supplementary information: Supplementary data are available at Bioinformatics online.
Reference Key
openalex_W2162667876 Use this key to autocite in the manuscript while using SciMatic Manuscript Manager or Thesis Manager
Authors R. C. Edgar, Henrik Flyvbjerg
Journal BMC Bioinformatics
Year 2015
DOI
10.1093/bioinformatics/btv401
URL
https://academic.oup.com/bioinformatics/article-pdf/31/21/3476/17122369/btv401.pdf
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