SpliceMap
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Application data |
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| Created by | Kin Fai Au, John Mu |
|---|---|
| Biological application domain(s) | RNA-Seq alignment |
| Principal bioinformatics method(s) | Read mapping |
| Created at | Stanford University |
| Maintained? | Yes |
| Output format(s) | SAM |
| Programming language(s) | Python, C++ |
| Operating system(s) | Linux |
Summary: Detects splice junctions from RNA-seq data. This method does not depend on any existing annotation of gene structures and is capable of finding novel splice junctions with high sensitivity and specificity. It can handle long reads (50–100 nt) and can exploit paired-read information to improve mapping accuracy.
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Limitations
- Minimum read length is 50bp
- No color space support
Links
References
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