Journal Article

SCARF: maximizing next-generation EST assemblies for evolutionary and population genomic analyses

Michael S. Barker, Katrina M. Dlugosch, A. Chaitanya C. Reddy, Sarah N. Amyotte and Loren H. Rieseberg

in Bioinformatics

Volume 25, issue 4, pages 535-536
Published in print February 2009 | ISSN: 1367-4803
Published online January 2009 | e-ISSN: 1460-2059 | DOI: http://dx.doi.org/10.1093/bioinformatics/btp011
SCARF: maximizing next-generation EST assemblies for evolutionary and population genomic analyses

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Summary: Scaffolded and Corrected Assembly of Roche 454 (SCARF) is a next-generation sequence assembly tool for evolutionary genomics that is designed especially for assembling 454 EST sequences against high-quality reference sequences from related species. The program was created to knit together 454 contigs that do not assemble during traditional de novo assembly, using a reference sequence library to orient the 454 sequences.

Availability: SCARF is freely available at http://msbarker.com/software.htm, and is released under the open source GPLv3 license (http://www.opensource.org/licenses/gpl-3.0.html.

Contact: msbarker@indiana.edu

Supplementary information: Supplementary data are available at Bioinformatics online.

Journal Article.  1244 words.  Illustrated.

Subjects: Bioinformatics and Computational Biology

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