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A compilation and categorization of next-generation sequencing resources

ABACAS - Algorithm Based Automatic Contiguation of Assembled Sequences

Tool nameABACAS - Algorithm Based Automatic Contiguation of Assembled Sequences
Important features1. ABACAS is a stand alone program intended to rapidly contiguate (align, order, orientate), visualize and design primers to close gaps on shotgun assembled contigs based on a reference sequence. 2. ABACAS generates a comparison file that can be used to visualize ordered and oriented contigs in ACT, the Artemis Comparison Tool.
CitationsAssefa S, Keane TM, Otto TD, Newbold C, Berriman M. ABACAS: algorithm-based automatic contiguation of assembled sequences. Bioinformatics. 2009 Aug 1;25(15):1968-9. Epub 2009 Jun 3. PubMed PMID: 19497936; PubMed Central PMCID: PMC2712343.
Year of publication2009
Rank by usage frequency93
CommentsIt requires installation of MUMer and BLAST for its working.
CategoryFree, Downloadable
Input file formatFASTA
Output file format
Operating system
Operating languagePerl
Maintained byBioMalPar Consortium and the Wellcome Trust Sanger Institute
Downloadable file format
Submission file format

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