SOCS | Tool name | SOCS |
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| URL | http://solidsoftwaretools.com/gf/project/socs/ |
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| Important features | 1. SOCS is a reference-based, ungapped alignment tool designed for mapping both standard SOLiDA0data and bisulfite transformed SOLiD data.
2. Short sequence-space variants of a user-specified length (typically one for SNPs) can be inferred from valid color-space variants. |
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| Citations | Ondov BD, Varadarajan A, Passalacqua KD, Bergman NH.
Efficient mapping of Applied Biosystems SOLiD sequence data to a reference genome for functional genomic applications.
Bioinformatics. 2008 Dec 1;24(23):2776-7. Epub 2008 Oct 7.
PMID: 18842598 |
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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, Bisulphite mapping, SNP discovery |
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| Category | Free, Downloadable |
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| License | GNU GPL V3 |
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| Status | |
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| Input file format | CSFasta/CSQUAL (ABI SOLiD) |
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| Output file format | .cvs, .best, .vmm, .amb, .map |
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| Operating system | Linux/Unix 32/64bit, Mac X OS 32/64bit |
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| Operating language | C++ |
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| Platform | ABI SOLiD |
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| Maintained by | Applied biosystems |
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| Downloadable file format | |
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| Submission file format | |
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