Article
cgpCaVEManWrapper: Simple Execution of CaVEMan in Order to Detect Somatic Single Nucleotide Variants in NGS Data.
Current protocols in bioinformatics - 8 Dec 2016
Jones David, Raine Keiran M, Davies Helen, Tarpey Patrick S, Butler Adam P, Teague Jon W, Nik-Zainal Serena, Campbell Peter J
Abstract excerpt
CaVEMan is an expectation maximization-based somatic substitution-detection algorithm that is written in C. The algorithm analyzes sequence data from a test sample, such as a tumor relative to a reference normal sample from the same patient and the reference genome. It performs a comparative analysis of the tumor and normal sample to derive a probabilistic estimate for putative somatic substitutions. When...
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