cosmicsig 1.3.1

• Use the \doi{} Rd macro for the Alexandrov et al. 2020 reference on the package help page, replacing the previous \href{https://doi.org/...}{doi:...} form, as requested by CRAN.

cosmicsig 1.3.0

• Added new exported package data variable COSMIC_v3.5.
• Removed package ICAMS dependency (was a documentation dependency only).
• Marked the etiology data object and the get_etiology() function as deprecated. The etiology information is not versioned at COSMIC and is no longer being updated in this package; it may be incomplete for signatures added in recent COSMIC releases. Users should consult https://cancer.sanger.ac.uk/signatures/ for current etiologies. Both remain exported for backwards compatibility.

cosmicsig 1.2.0

• Added new exported package data variable COSMIC_v3.4.

cosmicsig 1.1.1 (submitted to CRAN)

• Updated CITATION file using bibentry instead.

cosmicsig 1.1.0

• Added new exported package data variable COSMIC_v3.3.

• Added @aliases cosmicsig-package in cosmicsig.R according to CRAN’s suggestion.

• Updated documentation for variable signature and etiology.

• Updated documentation for package help page.

• Removed SBS192 signature etiology information from exported data etiology.

cosmicsig 1.0.7 (submitted to CRAN)

• Fixed the URL in README.

cosmicsig 1.0.6

• Removed some long running examples.

cosmicsig 1.0.5

• Updated the DESCRIPTION to remove false-positive misspellings.

cosmicsig 1.0.4

• Updated the DESCRIPTION to use single quotes for package name.

• Deleted the extra word “into” in DESCRIPTION.

• Deleted “| file LICENSE” in DESCRIPTION and the file.

• Used Authors@R field in DESCRIPTION.

• Added Rd-tag in possible_artifacts.Rd and rare_signatures.Rd.

• Removed in the examples.

• Wrapped examples that need packages in ‘Suggests’ in if(requireNamespace("pkgname")){}.

cosmicsig 1.0.3

• Applied tidyverse style to existing code

• Added new exported function possible_artifacts, rare_signatures

cosmicsig 1.0.2

• Added signatures renormalized for other genomes. The available genomes are GRCh37, GRCh38, mm9, mm10 and rn6

cosmicsig 1.0.1

• Used GRCh38 signatures as the default for SBS96 and DBS78 in variable signature, COSMIC_v3.2, COSMIC_v3.1 and COSMIC_v3.0

• Removed genome level structure from variables signature, COSMIC_v3.2, COSMIC_v3.1 and COSMIC_v3.0

• Removed argument cosmic_version from exported function get_etiology

• Added explanation for “-E” in function SBS96_ID_to_SBS192_ID

cosmicsig 1.0.0

• Added exported package data variable signature, etiology, COSMIC_v3.2, COSMIC_v3.1 and COSMIC_v3.0

• Added exported function get_etiology, SBS96_ID_to_SBS192_ID and automated tests

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