\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.COSMIC_v3.5.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information is not versioned at COSMIC and is no longer being updated in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.COSMIC_v3.4.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.
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")){}.
Applied tidyverse style to existing code
Added new exported function possible_artifacts,
rare_signatures
GRCh37, GRCh38, mm9,
mm10 and rn6Used 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
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