plotSignatures: Plots decomposed mutational signatures

Description Usage Arguments Value See Also

View source: R/plotSignatures.R

Description

Takes results from extractSignatures and plots decomposed mutational signatures as a barplot.

Usage

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plotSignatures(
  nmfRes = NULL,
  contributions = FALSE,
  color = NULL,
  patient_order = NULL,
  font_size = 1.2,
  show_title = TRUE,
  sig_db = "legacy",
  axis_lwd = 2,
  title_size = 0.9,
  show_barcodes = FALSE,
  yaxisLim = 0.3,
  ...
)

Arguments

nmfRes

results from extractSignatures

contributions

If TRUE plots contribution of signatures in each sample.

color

colors for each Ti/Tv conversion class. Default NULL

patient_order

User defined ordering of samples. Default NULL.

font_size

font size. Default 1.2

show_title

If TRUE compares signatures to COSMIC signatures and prints them as title

sig_db

Only applicable if show_title is TRUE. Can be legacy or SBS. Default legacy

axis_lwd

axis width. Default 2.

title_size

size of title. Default 1.3

show_barcodes

Default FALSE

yaxisLim

Default 0.3. If NA autoscales.

...

further plot options passed to barplot

Value

Nothing

See Also

trinucleotideMatrix plotSignatures


maftools documentation built on Feb. 6, 2021, 2 a.m.