Difference between revisions of "FusionSeq"
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{{Bioinformatics application | {{Bioinformatics application | ||
|sw summary=Identifies fusion transcripts from paired end RNA-Seq data. | |sw summary=Identifies fusion transcripts from paired end RNA-Seq data. | ||
| − | |bio domain=Fusion transcripts, RNA-Seq | + | |bio domain=Fusion transcripts, RNA-Seq, Gene Fusions, Fusion Transcripts |
| − | |bio method=Alignment Analysis, | + | |bio method=Alignment Analysis, |
|bio tech=Platform independent | |bio tech=Platform independent | ||
|created by=Andrea Sboner, Lukas Habegger | |created by=Andrea Sboner, Lukas Habegger | ||
Revision as of 22:34, 20 May 2011
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Application data |
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| Created by | Andrea Sboner, Lukas Habegger |
|---|---|
| Biological application domain(s) | Fusion transcripts, RNA-Seq, Gene Fusions, Fusion Transcripts |
| Principal bioinformatics method(s) | Alignment Analysis |
| Technology | Platform independent |
| Created at | Yale University |
| Maintained? | Yes |
| Input format(s) | MRF |
| Output format(s) | GFR, BP |
| Programming language(s) | C |
| Licence | Creative Commons - Attribution; Non-commercial 2.5 |
| Operating system(s) |
, MacOS |
Summary: Identifies fusion transcripts from paired end RNA-Seq data.
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Description
FusionSeq is a modular computational framework that detects fusion transcripts from RNASeq data. It is composed by three main modules: 1) a fusion detection modules, which identifies the potential fusion transcript candidates; 2) a filtration cascade module, which removes artifacts generated by several sources of noise, such as mismapping, random pairing during sample preparation, etc.; 3) a junction-sequence identifier module, which detect the sequence of the junction. Each fusion candidate is also ranked according to several statistic to help prioritize the experimental validation.
Links
- FusionSeq Homepage [ edit link ]
- FusionSeq Manual [ edit link ]
- FusionSeq Source code [ edit link ]
- FusionSeq HOWTO [ edit link ]
References
To add a reference for FusionSeq, enter the PubMed ID in the field below and click 'Add'.
Search for "FusionSeq" in the SEQanswers forum / BioStar or:
| Web Search | Wiki Sites | Scientific |
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