mutation-distribution: Distributions of mutational locations.

Description Usage Arguments Value See Also Examples

Description

Summary and plotting function for characterizing the distributions of mutations along the genome.

Usage

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mutationDistance(x)

plotRainfall(x, group, size = 2, alpha = 0.5, space.skip = 0, ...)

Arguments

x

A 'GRanges' or 'VRanges' object [required].

group

The variable name for color groups [optional].

size

Point size [default: 2]

alpha

Alpha value for points [default: 0.5]

space.skip

Space between chromosomes, as defined by 'plotGrandLinear' [default: 0]

...

Additional arguments passed to 'plotGrandLinear'

Value

See Also

plotGrandLinear from the 'ggbio' package

Examples

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library(GenomicRanges)
library(IRanges)

set.seed(1)
chr_len = 100
gr = GRanges(rep(1:3, each = 10),
  IRanges(start = sample.int(chr_len, 30, replace = FALSE), width = 1),
  mutation = sample(c("A", "C", "G", "T"), 30, replace = TRUE))
seqlengths(gr) = rep(chr_len, 3)

p = plotRainfall(gr)
print(p)

SomaticSignatures documentation built on Nov. 1, 2018, 2:23 a.m.