visPMS_ind: visualize probabisitic mutaiton signature for the independent...

In friend1ws/pmsignature: Extracting characteristic mutation signatures from a set of mutation data.

Description

Generate visualization of mutation signatures for the model with substitution patterns and flanking bases represented by the indepenent representation.

Usage

visPMS_ind(vF, numBases, baseCol = NA, trDir = FALSE, charSize = 5,
  isScale = FALSE, alpha = 2, charLimit = 0.25)

Arguments

vF	a matrix for mutation signature
numBases	the number of flanking bases
baseCol	the colour of the bases (A, C, G, T, plus strand, minus strand)
trDir	the index whether the strand direction is plotted or not
charSize	the size of the character
isScale	the index whether the height of the flanking base is changed or not
alpha	the parameter for the Renyi entropy (applicable only if the isScale is TRUE)

friend1ws/pmsignature documentation built on May 16, 2019, 3:27 p.m.