SomaticSniper | Tool name | SomaticSniper |
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| URL | http://genome.wustl.edu/software/somaticsniper |
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| Important features | 1. This program is to identify single nucleotide positions that are different between tumor and normal (or, in theory, any two BAM files).
2. It takes a tumor BAM and a normal BAM and compares the two, to determine the differences.
3. It uses the genotype likelihood model of MAQ (as implemented in SAMTools) and then calculates the probability that the tumor and normal genotypes are different. |
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| Citations | Larson DE, Harris CC, Chen K, Koboldt DC, Abbott TE, Dooling DJ, Ley TJ, Mardis ER, Wilson RK, Ding L. SomaticSniper: Identification of Somatic Point
Mutations in Whole Genome Sequencing Data. Bioinformatics. 2011 Dec 6. [Epub ahead of print] PubMed PMID: 22155872. |
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| Year of publication | 2011 |
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| Rank by usage frequency | 100 |
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| Comments | |
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| Function | SNP discovery |
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| Category | Free, Downloadable |
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| Input file format | FASTA |
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| Operating system | 64-bit Linux |
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| Maintained by | Washington University in St. Louis
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