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Old 01-11-2011, 07:20 AM   #1
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Default RNA-Seq: X-MATE: A flexible system for mapping short read data.

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X-MATE: A flexible system for mapping short read data.

Bioinformatics. 2011 Jan 6;

Authors: Wood DL, Xu Q, Pearson JV, Cloonan N, Grimmond SM

SUMMARY: Accurate and complete mapping of short-read sequencing to a reference genome greatly enhances the discovery of biological results and improves statistical predictions. We recently presented RNA-MATE, a pipeline for the recursive mapping of RNA-Seq data sets. With the rapid increase in genome re-sequencing projects, progression of available mapping software and the evolution of file formats, we now present X-MATE, an updated version of RNA-MATE, capable of mapping both RNA-Seq and DNA data sets and with improved performance, output file formats, configuration files, and flexibility in core mapping software. AVAILABILITY: Executables, source code, junction libraries, test data and results, and the user manual are available from http://grimmond.imb.uq.edu.au/X-MATE/ CONTACT: n.cloonan@uq.edu.au or s.grimmond@uq.edu.au SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics Online.

PMID: 21216778 [PubMed - as supplied by publisher]



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