Difference between revisions of "GASSST"
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{{Bioinformatics application | {{Bioinformatics application | ||
| − | |sw summary=Fast and accurate aligner for short an long reads | + | |sw summary=Fast and accurate aligner for short an long reads |
| − | |bio method= | + | |bio method=Sequence alignment, Mapping |
|created by=Guillaume Rizk and Dominique Lavenier | |created by=Guillaume Rizk and Dominique Lavenier | ||
|created at=IRISA-Symbiose | |created at=IRISA-Symbiose | ||
Latest revision as of 16:03, 19 December 2015
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Application data |
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| Created by | Guillaume Rizk and Dominique Lavenier |
|---|---|
| Principal bioinformatics method(s) | Sequence alignment, Mapping |
| Created at | IRISA-Symbiose |
| Maintained? | Yes |
| Input format(s) | FASTA |
| Output format(s) | SAM |
| Software features | Gapped alignment, short and long reads |
| Programming language(s) | C++ |
| Licence | CeCILL |
| Operating system(s) | Linux |
Summary: Fast and accurate aligner for short an long reads
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Description
GASSST is a read mapper with two main objectives:
- efficient on short 36 bp reads as well as on longer 500bp reads
- still efficient with a high error rate and indels.
It uses the traditional "seed and extend" paradigm with a new filtering step to quickly discards most candidate alignment locations.
Links
References
To add a reference for GASSST, enter the PubMed ID in the field below and click 'Add'.
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