Journal Article

CD-HIT Suite: a web server for clustering and comparing biological sequences

Ying Huang, Beifang Niu, Ying Gao, Limin Fu and Weizhong Li

in Bioinformatics

Volume 26, issue 5, pages 680-682
Published in print March 2010 | ISSN: 1367-4803
Published online January 2010 | e-ISSN: 1460-2059 | DOI: http://dx.doi.org/10.1093/bioinformatics/btq003

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Summary: CD-HIT is a widely used program for clustering and comparing large biological sequence datasets. In order to further assist the CD-HIT users, we significantly improved this program with more functions and better accuracy, scalability and flexibility. Most importantly, we developed a new web server, CD-HIT Suite, for clustering a user-uploaded sequence dataset or comparing it to another dataset at different identity levels. Users can now interactively explore the clusters within web browsers. We also provide downloadable clusters for several public databases (NCBI NR, Swissprot and PDB) at different identity levels.

Availability: Free access at http://cd-hit.org

Contact: liwz@sdsc.edu

Supplementary information: Supplementary data are available at Bioinformatics online.

Journal Article.  1470 words.  Illustrated.

Subjects: Bioinformatics and Computational Biology

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