createShuffleTable: createShuffleTable

In AlexJanse/cMut: Identify Clustered Single Nucleotide Mutations and Link Them to Mutational Patterns

Description

A function to bootstrap the mutation table

Usage

createShuffleTable(dataTable, chromHeader, positionHeader, refHeader,
  altHeader, contextHeader, sampleIdHeader)

Arguments

dataTable	A table with the reference, alternative and surrounding nucleotides. The best data to use is the output of the identifyClusters where is.clustered is TRUE.
chromHeader	A string with the name of the column with the chromosome name. (So the data in the column needs to be notated as e.g. "chr2")
positionHeader	A string with the name of the column with the position of the mutation. (The data in the column needs to be nummeric.)
refHeader	A string with the column header of the reference nucleotide.
altHeader	A string with the column header of the alternative nucleotide.
contextHeader	A string with the column header of the context nucleotides.
sampleIdHeader	A string with the name of the column with the sample ID.

AlexJanse/cMut documentation built on May 25, 2019, 4 a.m.