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
Source: https://bioconductor.org/packages/release/bioc/src/contrib/SomaticSignatures_2.38.0.tar.gz
Documentation: https://bioconductor.org/packages/release/bioc/manuals/SomaticSignatures/man/SomaticSignatures.pdf
Home page: http://bioconductor.org/packages/release/bioc/html/SomaticSignatures.html
Links: https://git.bioconductor.org/packages/SomaticSignatures
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