R/signature.R

In Rozen-Lab/cosmicsig: Mutational Signatures from COSMIC (Catalogue of Somatic Mutations in Cancer)

#' Mutational signatures data from COSMIC, Catalogue Of Somatic Mutations In
#' Cancer (v3.3 - June 2022)
#'
#' @source \url{https://cancer.sanger.ac.uk/signatures/}.
#'
#' @format A list with the following elements:
#'
#' * GRCh37: Homo sapiens (human) genome assembly GRCh37.
#' * GRCh38: Homo sapiens (human) genome assembly GRCh38.
#' * mm9: Mus musculus (house mouse) genome assembly mm9.
#' * mm10: Mus musculus (house mouse) genome assembly mm10.
#' * rn6: Rattus norvegicus (Norway rat) genome assembly rn6.
#'
#' Each element contains the sub elements:
#'
#' * SBS96: Strand-agnostic single-base substitutions in trinucleotide context.
#' * DBS78: Strand-agnostic doublet-base substitutions.
#'
#' Element GRCh37 contains the additional sub elements:
#'
#' * ID: Strand-agnostic indels (short insertions and deletions).
#'
#' @section Remark:
#' The signatures are all genome signatures. \cr See \link[ICAMS]{CatalogRowOrder}
#' in package ICAMS for the classification of mutation types.
#'
#' @name signature
#'
#' @md
#'
#' @examples
#' sbs96_sig <- signature$GRCh37$SBS96
#'
"signature"