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
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-prerel: mutationtypes_0.0.1.zip, r-release: mutationtypes_0.0.1.zip, r-oldrel: mutationtypes_0.0.1.zip
macOS binaries: r-prerel (arm64): mutationtypes_0.0.1.tgz, r-release (arm64): mutationtypes_0.0.1.tgz, r-oldrel (arm64): mutationtypes_0.0.1.tgz, r-prerel (x86_64): mutationtypes_0.0.1.tgz, r-release (x86_64): mutationtypes_0.0.1.tgz

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