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EULER-SR | De novo repeat classification and fragment assembly

Corrects and congregates errors in short reads. EULER-SR assembler replaces the higher measure tree optimization of the A-Bruijn graph by the maximum branching optimization on de Bruijn graphs. It provides the contigs and the repeat graph of the assembled genome, link the contigs by repeats and direct finishing effort. Subsequently, it improves use of mate-pairs when they become available, as tested on 454 Life Sciences and Illumina.

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EULER-SR classification

EULER-SR specifications

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Command line interface, Application programming interface
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Bioinformatics Program, University of California San Diego, La Jolla, CA, USA; Department of Computer Science and Engineering, University of California San Diego, La Jolla, CA, USA

Funding source(s)

This research was supported by NIH grant 1R21HG004130-01 and by NSF Infrastructure grant EIA-0303622.

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