cgpCaVEManWrapper: Simple Execution of CaVEMan in Order to Detect Somatic Single Nucleotide Variants in NGS Data.

@article{Jones2016cgpCaVEManWrapperSE,
  title={cgpCaVEManWrapper: Simple Execution of CaVEMan in Order to Detect Somatic Single Nucleotide Variants in NGS Data.},
  author={David Jones and Keiran M Raine and Helen R. Davies and Patrick S. Tarpey and Adam P. Butler and Jon W. Teague and Serena Nik-Zainal and Peter J. Campbell},
  journal={Current protocols in bioinformatics},
  year={2016},
  volume={56},
  pages={
          15.10.1-15.10.18
        }
}
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 combined with a set of validated post-hoc filters, CaVEMan generates a set of somatic… CONTINUE READING
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