Difference between revisions of "Figaro"
m (Text replace - "k-mer analysis" to "k-mer counting") |
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|sw logo=Image:FigaroLogo.png | |sw logo=Image:FigaroLogo.png | ||
|bio domain=Sequencing, | |bio domain=Sequencing, | ||
| − | |bio method=k-mer | + | |bio method=k-mer counting |
|bio tech=Sanger | |bio tech=Sanger | ||
|created by=White JR, Roberts M, Yorke JA, Pop M | |created by=White JR, Roberts M, Yorke JA, Pop M | ||
|created at=University of Maryland | |created at=University of Maryland | ||
|input format=FASTA, Trace Archive | |input format=FASTA, Trace Archive | ||
| − | |output format=Clipping coordinates (CLR), | + | |output format=Clipping coordinates (CLR), AFG, FASTA, QUAL |
|sw feature=AMOS | |sw feature=AMOS | ||
|language=C++, Perl | |language=C++, Perl | ||
| − | |licence= | + | |licence=Artistic License, |
| − | |os= | + | |os=UNIX, |
}} | }} | ||
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. | ||
| + | {{Links}} | ||
| + | {{References}} | ||
| + | {{Link box}} | ||
Latest revision as of 16:42, 19 December 2015
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Application data |
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| Created by | White JR, Roberts M, Yorke JA, Pop M |
|---|---|
| Biological application domain(s) | Sequencing |
| Principal bioinformatics method(s) | k-mer counting |
| 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.
"Error: no local variable "counter" was set." is not a number.
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 |
|---|---|---|
