tmod (version 0.50.13)

ggEvidencePlot: Create an evidence plot for a module (ggplot2 version)

Description

Create an evidence plot for a module (ggplot2 version)

Usage

ggEvidencePlot(
  l,
  m,
  mset = NULL,
  filter = FALSE,
  unique = TRUE,
  gene.labels = NULL,
  gene.colors = NULL
)

Arguments

l

sorted list of HGNC gene identifiers

m

character vector of modules for which the plot should be created

mset

Which module set to use (see tmodUtest for details)

filter

if TRUE, genes not defined in the module set will be removed

unique

if TRUE, duplicates will be removed

gene.labels

if TRUE, gene names are shown; alternatively, a named character vector with gene labels to be shown, or NULL (default) for no labels (option evaluated only if rug is plotted)

gene.colors

NULL (default) or a character vectors indicating the color for each gene. Either a named vector or a vector with the same order of genes as `l`.