plot_exposures_by_annotation: Plots signature weights for each sample gridded by single...

In campbio/BAGEL: Novel Mutational Signature Analysis

Description

Plots signature weights for each sample gridded by single annotation

Usage

plot_exposures_by_annotation(
  result,
  annotation,
  proportional = TRUE,
  label_samples = FALSE,
  sort_samples = "numerical",
  by_group = TRUE,
  num_samples = FALSE,
  no_legend = FALSE,
  thresh_zero = FALSE,
  plotly = FALSE
)

Arguments

result	S4 Result Object
annotation	Annotation to use for facet_wrap
proportional	Whether weights are normalized to sum to 1 or not
label_samples	Whether to display sample names or not
sort_samples	Defaults to numerical, may be total 'counts', or a specific signatures name (e.g. 'Signature1)
by_group	Plot subplots by annotation or by signature
num_samples	Number of sorted samples to plot
no_legend	Remove legend from the plot
thresh_zero	Max level to zero out for better plotting when sorting by multiple signatures
plotly	add plotly layer for plot interaction

Value

Generates plot no return

Examples

result <- readRDS(system.file("testdata", "res_annot.rds",
package = "BAGEL"))
plot_exposures_by_annotation(result, "Tumor_Subtypes")

campbio/BAGEL documentation built on Oct. 6, 2020, 3:59 a.m.