ABACAS - Algorithm Based Automatic Contiguation of Assembled Sequences | Tool name | ABACAS - Algorithm Based Automatic Contiguation of Assembled Sequences |
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| URL | http://abacas.sourceforge.net |
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| Important features | 1. 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. |
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| Citations | Assefa 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. |
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| Year of publication | 2009 |
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| Rank by usage frequency | 93 |
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| Comments | It requires installation of MUMer and BLAST for its working. |
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| Function | Visualization |
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| Category | Free, Downloadable |
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| License | |
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| Input file format | FASTA |
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| Operating language | Perl |
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| Maintained by | BioMalPar Consortium and the Wellcome Trust Sanger Institute
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