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

In tmod: Feature Set Enrichment Analysis for Metabolomics and Transcriptomics

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'.

tmod documentation built on March 31, 2023, 9 p.m.