Description Usage Arguments Value Examples
plot.samplesMut
Function to plot samples mutation counts.
1 2 3 |
sample.mutations |
data frame in MAF like format.
Columns (with exactly same names) which
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indels |
a boolean value indicating should indels be counted. By default it is True. |
silent |
a boolean value indicating should silent mutations be counted. By default it is True. |
fill |
a boolean value indicating should plot only represent proportion between 3 types of mutations, not counts. By default it is False. |
Tumor_Sample_Barcode |
(optional) integer/numeric value indicating column in |
Hugo_Symbol |
(optional) integer/numeric value indicating column in |
Variant_Classification |
(optional) integer/numeric value indicating column in |
Variant_Type |
(optional) integer/numeric value indicating column in |
ggplot2 object
1 2 3 4 | # plot sample's mutations , all of them
plotSamplesMut(sample.genes.mutect)
# plot proportion of silent and nonsilent, without indels
plotSamplesMut(sample.genes.mutect, indels=FALSE, fill=TRUE)
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