mutationtypes

mutationtypes-package

<img src="figures/logo.png?package=mutationtypes&version=0.0.1" style="float: right" alt="logo" width="120">
Check concordance of a vector of mutation impacts with standard dictionaries such as Sequence Ontology (SO) <a href="http://www.sequenceontology.org/">http://www.sequenceontology.org/</a>, Mutation Annotation Format (MAF) <a href="https://docs.gdc.cancer.gov/Encyclopedia/pages/Mutation_Annotation_Format_TCGAv2/">https://docs.gdc.cancer.gov/Encyclopedia/pages/Mutation_Annotation_Format_TCGAv2/</a> or Prediction and Annotation of Variant Effects (PAVE) <a href="https://github.com/hartwigmedical/hmftools/tree/master/pave">https://github.com/hartwigmedical/hmftools/tree/master/pave</a>. It enables conversion between SO/PAVE and MAF terms and selection of the most severe consequence where multiple ampersand (&amp;) delimited impacts are given.

internal

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.

Sam El-Kamand

Validate and Convert Mutational Impacts Using Standard Genomic
Dictionaries

Children's Cancer Institute Australia 

mutationtypes-package function

Maintainer: Sam El-Kamand <a href="/link/sam.elkamand%40gmail.com?package=mutationtypes&version=0.0.1" data-mini-rdoc="mutationtypes::sam.elkamand@gmail.com">sam.elkamand@gmail.com</a> (<a href="https://orcid.org/0000-0003-2270-8088">ORCID</a>)
Other contributors:<ul>
<li>Children's Cancer Institute Australia [copyright holder]</li>
</ul>

Author

<img src='figures/logo.png' style='float: right' alt='logo' width='120' />
Check concordance of a vector of mutation impacts with standard dictionaries such as Sequence Ontology (SO) <a href='http://www.sequenceontology.org/'>http://www.sequenceontology.org/</a>, Mutation Annotation Format (MAF) <a href='https://docs.gdc.cancer.gov/Encyclopedia/pages/Mutation_Annotation_Format_TCGAv2/'>https://docs.gdc.cancer.gov/Encyclopedia/pages/Mutation_Annotation_Format_TCGAv2/</a> or Prediction and Annotation of Variant Effects (PAVE) <a href='https://github.com/hartwigmedical/hmftools/tree/master/pave'>https://github.com/hartwigmedical/hmftools/tree/master/pave</a>. It enables conversion between SO/PAVE and MAF terms and selection of the most severe consequence where multiple ampersand (&amp;) delimited impacts are given.

mutationtypes: Validate and Convert Mutational Impacts Using Standard Genomic Dictionaries — mutationtypes-package

Maintainer: Sam El-Kamand <a href='mailto:sam.elkamand@gmail.com'>sam.elkamand@gmail.com</a> (<a href='https://orcid.org/0000-0003-2270-8088'>ORCID</a>)
Other contributors:<ul>
<li>Children's Cancer Institute Australia [copyright holder]</li>
</ul>

mutationtypes-package: mutationtypes: Validate and Convert Mutational Impacts Using Standard Genomic Dictionaries

Description

Arguments

Author

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