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


ABSTRACT: 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 datasets. 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 datasets 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/.

SUBMITTER: Wood DL 

PROVIDER: S-EPMC3035802 | BioStudies | 2011-01-01T00:00:00Z

REPOSITORIES: biostudies

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