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cosmicsig

Purpose

Mutational signatures data from COSMIC, the Catalogue Of Somatic Mutations In Cancer (https://cancer.sanger.ac.uk/signatures/). There are also some helper functions for handling COSMIC signatures.

Installation

Get the stable version

install.packages("cosmicsig")

Get the development version

Install cosmicsig from the master branch on GitHub:

if (!requireNamespace("remotes", quietly = TRUE)) {
  install.packages("remotes")
}
remotes::install_github(repo = "Rozen-Lab/cosmicsig", ref = "master")

Reference manual

https://github.com/Rozen-Lab/cosmicsig/blob/v1.1.1-branch/cosmicsig_1.1.1.pdf

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Version

Install

install.packages('cosmicsig')

Monthly Downloads

282

Version

1.1.1

License

GPL-3

Issues

Pull Requests

Stars

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Maintainer

Steven Rozen

Last Published

August 30th, 2023

Functions in cosmicsig (1.1.1)

get_etiology

Get the proposed etiology of mutational signatures.
COSMIC_v3.0

Mutational signatures data from COSMIC, Catalogue Of Somatic Mutations In Cancer (v3.0 - May 2019)
COSMIC_v3.2

Mutational signatures data from COSMIC, Catalogue Of Somatic Mutations In Cancer (v3.2 - March 2021)
cosmicsig

possible_artifacts

Return a character vector of the names of possible SBS96 signature artifacts
etiology

List of mutational signatures's proposed etiology summarized from COSMIC, Catalogue Of Somatic Mutations In Cancer (v3.3 - June 2022)
rare_signatures

Return a character vector of the names of rare SBS96 signatures
SBS96_ID_to_SBS192_ID

Translate SBS96 signature IDs to SBS192 signature IDs by adding "-E" if necessary
COSMIC_v3.1

Mutational signatures data from COSMIC, Catalogue Of Somatic Mutations In Cancer (v3.1 - June 2020)
COSMIC_v3.3

Mutational signatures data from COSMIC, Catalogue Of Somatic Mutations In Cancer (v3.3 - June 2022)
signature

Mutational signatures data from COSMIC, Catalogue Of Somatic Mutations In Cancer (v3.3 - June 2022)