Difference between revisions of "Figaro"
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Figaro is a software tool for identifying and removing the vector from raw DNA sequence data without prior knowledge of the vector sequence. By statistically modeling short oligonucleotide frequencies within a set of reads, Figaro is able to determine which DNA words are most likely associated with vector sequence. For a description of Figaro's algorithms please see our paper. You may download Figaro individually, or as part of the AMOS package at SourceForge. | Figaro is a software tool for identifying and removing the vector from raw DNA sequence data without prior knowledge of the vector sequence. By statistically modeling short oligonucleotide frequencies within a set of reads, Figaro is able to determine which DNA words are most likely associated with vector sequence. For a description of Figaro's algorithms please see our paper. You may download Figaro individually, or as part of the AMOS package at SourceForge. | ||
Revision as of 09:35, 15 September 2011
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Application data |
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| Created by | White JR, Roberts M, Yorke JA, Pop M |
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| Biological application domain(s) | Sequencing |
| Principal bioinformatics method(s) | k-mer analysis |
| Technology | Sanger |
| Created at | University of Maryland |
| Maintained? | Maybe |
| Input format(s) | FASTA, Trace Archive |
| Output format(s) | Clipping coordinates (CLR), AFG, FASTA, QUAL |
| Software features | AMOS |
| Programming language(s) | C++, Perl |
| Licence | Artistic License |
| Operating system(s) | UNIX |
Summary: Figaro is a software tool for identifying and removing the vector from raw DNA sequence data without prior knowledge of the vector sequence.
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Figaro is a software tool for identifying and removing the vector from raw DNA sequence data without prior knowledge of the vector sequence. By statistically modeling short oligonucleotide frequencies within a set of reads, Figaro is able to determine which DNA words are most likely associated with vector sequence. For a description of Figaro's algorithms please see our paper. You may download Figaro individually, or as part of the AMOS package at SourceForge.
Links
References
To add a reference for Figaro, enter the PubMed ID in the field below and click 'Add'.
Search for "Figaro" in the SEQanswers forum / BioStar or:
| Web Search | Wiki Sites | Scientific |
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