Tweet
Syndicated from PubMed RSS Feeds
DySC: Software for Greedy Clustering of 16S rRNA Reads.
Bioinformatics. 2012 Jun 23;
Authors: Zheng Z, Kramer S, Schmidt B
Abstract
SUMMARY: Pyrosequencing technologies are frequently used for sequencing the 16S rRNA marker gene for profiling microbial communities. Clustering of the produced reads is an important but time-consuming task. We present DySC, a new tool based on the greedy clustering approach which uses a dynamic seeding strategy. Evaluations based on the normalized mutual information criterion show that DySC produces higher quality clusters than UCLUST and CD-HIT at a comparable runtime.Availability and Implementation: DySC, implemented in C, is available at http://code.google.com/p/dysc/ under GNU GPL license. CONTACT: [email protected] SUPPLEMENTARY INFORMATION: available at Bioinformatics online.
PMID: 22730435 [PubMed - as supplied by publisher]
More...
DySC: Software for Greedy Clustering of 16S rRNA Reads.
Bioinformatics. 2012 Jun 23;
Authors: Zheng Z, Kramer S, Schmidt B
Abstract
SUMMARY: Pyrosequencing technologies are frequently used for sequencing the 16S rRNA marker gene for profiling microbial communities. Clustering of the produced reads is an important but time-consuming task. We present DySC, a new tool based on the greedy clustering approach which uses a dynamic seeding strategy. Evaluations based on the normalized mutual information criterion show that DySC produces higher quality clusters than UCLUST and CD-HIT at a comparable runtime.Availability and Implementation: DySC, implemented in C, is available at http://code.google.com/p/dysc/ under GNU GPL license. CONTACT: [email protected] SUPPLEMENTARY INFORMATION: available at Bioinformatics online.
PMID: 22730435 [PubMed - as supplied by publisher]
More...