plot_profile: Expression profile visualization

In csbl-usp/CEMiTool: Co-expression Modules identification Tool

Expression profile visualization

Description

Creates a plot with module gene expression profiles along samples

Usage

plot_profile(cem, ...)

## S4 method for signature 'CEMiTool'
plot_profile(cem, order_by_class = TRUE, center_func = "mean")

Arguments

cem	Object of class CEMiTool.
...	Optional parameters.
order_by_class	Logical. Only used if a sample annotation file is present. Whether or not to order by the class column in the sample annotation file (as defined by the class_column slot in cem).
center_func	Character string indicating the centrality measure to show in the plot. Either 'mean' (the default) or 'median'.

Value

Object of class CEMiTool with profile plots

Examples

# Get example CEMiTool object
data(cem)
# Plot module gene expression profiles
cem <- plot_profile(cem)
# Check resulting plot
show_plot(cem, "profile")

csbl-usp/CEMiTool documentation built on March 27, 2024, 5:14 a.m.