VarScan
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Application data |
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| Biological application domain(s) | SNP detection |
|---|---|
| Maintained? | Yes |
| Input format(s) | SAM, BAM |
| Output format(s) | TXT |
| Software features | SNP calling |
| Programming language(s) | Java |
| Contact: | dkoboldt@genome.wustl.edu |
Summary: VarScan, an open source tool for variant detection that is compatible with several short read align-ers.
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VarScan is a platform-independent, technology-independent software tool for identifying SNPs and indels in massively parallel sequencing of individual and pooled samples. Given data for a single sample, VarScan identifies and filters germline variants based on read counts, base quality, and allele frequency.
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