CD-HIT: accelerated for clustering the next-generation sequencing data

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ID: 289227
2012
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Abstract
CD-HIT is a widely used program for clustering biological sequences to reduce sequence redundancy and improve the performance of other sequence analyses. In response to the rapid increase in the amount of sequencing data produced by the next-generation sequencing technologies, we have developed a new CD-HIT program accelerated with a novel parallelization strategy and some other techniques to allow efficient clustering of such datasets. Our tests demonstrated very good speedup derived from the parallelization for up to ∼24 cores and a quasi-linear speedup for up to ∼8 cores. The enhanced CD-HIT is capable of handling very large datasets in much shorter time than previous versions.http://cd-hit.org.liwz@sdsc.eduSupplementary data are available at Bioinformatics online.
Reference Key
openalex_W2170747616 Use this key to autocite in the manuscript while using SciMatic Manuscript Manager or Thesis Manager
Authors LiMin Fu, Beifang Niu, Zhengwei Zhu, Sitao Wu, Weizhong Li
Journal BMC Bioinformatics
Year 2012
DOI
10.1093/bioinformatics/bts565
URL
https://academic.oup.com/bioinformatics/article-pdf/28/23/3150/50695216/bioinformatics_28_23_3150.pdf
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