SomaticSignatures

The SomaticSignatures R package is part of the Bioconductor project to identify mutational signatures from cancer sequencing data. These signatures represent patterns in the occurrence of somatic single-nucleotide variants, shedding light on the underlying mutational processes driving cancer development. The package stands out for its flexibility, interoperability, and ease of use, enabling researchers to perform large-scale, cross-dataset estimation of mutational signatures. It incorporates existing methods for pattern decomposition and allows for customization through user-defined approaches.

Topic

Genetic variation;Statistics and probability;Sequencing

Detail

  • Operation: Genetic variation analysis

  • Software interface: Command-line user interface,Library

  • Language: R

  • License: The MIT License

  • Cost: Free

  • Version name: 2.38.0

  • Credit: NSF and Genentech Inc.

  • Input: -

  • Output: -

  • Contact: Julian Gehring jg-bioc@gmx.com

  • Collection: -

  • Maturity: Stable

Publications

  • SomaticSignatures: inferring mutational signatures from single-nucleotide variants.
  • Gehring JS, et al. SomaticSignatures: inferring mutational signatures from single-nucleotide variants. SomaticSignatures: inferring mutational signatures from single-nucleotide variants. 2015; 31:3673-5. doi: 10.1093/bioinformatics/btv408
  • https://doi.org/10.1093/bioinformatics/btv408
  • PMID: 26163694
  • PMC: PMC4817139

Download and documentation


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