dnvTabToTNVcatalogue: Build a Triinucleotide Variants Catalogue from DNVs

In Nik-Zainal-Group/signature.tools.lib: signature.tools.lib

Build a Triinucleotide Variants Catalogue from DNVs

Description

This function takes as input a list of double nucleotide variants (DNVs), and computes a list of trinucleotide variants (TNVs) finding which DNVs are next to each other. It then returns the annotated TNVs and the TNV catalogues. The trinucleotide mutations considered are only those where all three bases change, i.e. TTT>AAA but not TTT>ATA.

Usage

dnvTabToTNVcatalogue(dnvtab)

Arguments

dnvtab

requires columns Sample, Chrom, Pos, Ref, Alt, with Ref and Alt of length 2

Value

list of TNVs and TNV catalogue

Nik-Zainal-Group/signature.tools.lib documentation built on April 13, 2025, 5:50 p.m.