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SHREC

swMATH ID: 35280
Software Authors: Schroder, J., Schroder, H., Puglisi, S.J., Sinha, R., Schmidt, B.
Description: SHREC: a short-read error correction method. Motivation: Second-generation sequencing technologies produce a massive amount of short reads in a single experiment. However, sequencing errors can cause major problems when using this approach for de novo sequencing applications. Moreover, existing error correction methods have been designed and optimized for shotgun sequencing. Therefore, there is an urgent need for the design of fast and accurate computational methods and tools for error correction of large amounts of short read data. Results: We present SHREC, a new algorithm for correcting errors in short-read data that uses a generalized suffix trie on the read data as the underlying data structure. Our results show that the method can identify erroneous reads with sensitivity and specificity of over 99
Homepage: https://academic.oup.com/bioinformatics/article/25/17/2157/210620
Related Software: Reptile; HiTEC; Quake; ALLPATHS; BWA; Fiona; GAGE; essaMEM; Readjoiner; KABOOM
Cited in: 3 Publications

Cited in 1 Serial

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