QPALMA | Tool name | QPALMA |
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| URL | http://www.fml.mpg.de/raetsch/projects/qpalma |
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| Important features | 1. Alignment tool targeted to align spliced reads produced by Next Generation Sequencing platforms such as Illumina Solexa or 454.
2. Aligns short reads to the genomic sequences in an optimal way according to its underlying algorithm and trained parameters.
3. Creates an alignment using dynamic programming (written in C++), and returns the alignment in a PSL like format. |
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| Citations | De Bona F, Ossowski S, Schneeberger K, R\E4tsch G. Optimal spliced alignments of short sequence reads. Bioinformatics. 2008 Aug 15;24(16):i174-80. PubMed PMID:18689821. |
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| Year of publication | 2008 |
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| Rank by usage frequency | 100 |
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| Comments | |
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| Function | RNA seq alignment |
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| Category | Downloadable |
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| License | |
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| Status | |
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| Input file format | |
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| Output file format | PSL-like |
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| Operating system | Linux/Unix 32/64bit |
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| Operating language | C++ and python |
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| Platform | Roche 454,
Illumina/Solexa |
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| Maintained by | |
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| Downloadable file format | |
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| Submission file format | |
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