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mutationtypes: Validate and Convert Mutational Impacts Using Standard Genomic Dictionaries

Check concordance of a vector of mutation impacts with standard dictionaries such as Sequence Ontology (SO) <http://www.sequenceontology.org/>, Mutation Annotation Format (MAF) <https://docs.gdc.cancer.gov/Encyclopedia/pages/Mutation_Annotation_Format_TCGAv2/> or Prediction and Annotation of Variant Effects (PAVE) <https://github.com/hartwigmedical/hmftools/tree/master/pave>. It enables conversion between SO/PAVE and MAF terms and selection of the most severe consequence where multiple ampersand (&) delimited impacts are given.

Version: 0.0.1
Imports: assertions, cli, data.table, stats, utils
Suggests: covr, testthat (≥ 3.0.0)
Published: 2023-12-14
DOI: 10.32614/CRAN.package.mutationtypes
Author: Sam El-Kamand ORCID iD [aut, cre], Children's Cancer Institute Australia [cph]
Maintainer: Sam El-Kamand <sam.elkamand at gmail.com>
BugReports: https://github.com/selkamand/mutationtypes/issues
License: LGPL (≥ 3)
URL: https://github.com/selkamand/mutationtypes
NeedsCompilation: no
Materials: README
CRAN checks: mutationtypes results

Documentation:

Reference manual: mutationtypes.pdf

Downloads:

Package source: mutationtypes_0.0.1.tar.gz
Windows binaries: r-devel: mutationtypes_0.0.1.zip, r-release: mutationtypes_0.0.1.zip, r-oldrel: mutationtypes_0.0.1.zip
macOS binaries: r-release (arm64): mutationtypes_0.0.1.tgz, r-oldrel (arm64): mutationtypes_0.0.1.tgz, r-release (x86_64): mutationtypes_0.0.1.tgz, r-oldrel (x86_64): mutationtypes_0.0.1.tgz

Linking:

Please use the canonical form https://CRAN.R-project.org/package=mutationtypes to link to this page.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
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