ABySS - Assembly By Short Sequences | Tool name | ABySS - Assembly By Short Sequences |
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| URL | http://www.bcgsc.ca/platform/bioinfo/software/abyss |
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| Important features | 1. It is a de novo, parallel, paired-end sequence assembler.
2. It can be run in paired-end mode.
ABySS transfers the sequence reads into binary format to save the computational space. It can handle read errors, perform well for large genome assembly. |
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| Citations | Simpson JT, Wong K, Jackman SD, Schein JE, Jones SJ, Birol I. ABySS: a parallel assembler for short read sequence data. Genome Res. 2009 Jun;19(6):1117-23. Epub 2009 Feb 27. PubMed PMID: 19251739; PubMed Central PMCID: PMC2694472. |
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| Year of publication | 2009 |
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| Rank by usage frequency | 100 |
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| Comments | |
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| Function | De novo assembler |
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| Category | Free, Downloadable |
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| License | BCCA |
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| Status | Working |
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| Input file format | FASTA and FASTQ,
QSEQ, SAM, BAM |
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| Output file format | FASTA |
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| Operating system | Linux, Mac OS X |
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| Operating language | C++ |
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| Platform | Roche 454, Illumina/Solexa, ABI SOLiD |
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| Maintained by | Shaun Jackman |
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| Downloadable file format | |
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| Submission file format | |
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