plot_hm2: A Function That Plots Heatmaps.

In fchuffar/epimedtools: Useful Tools Allowing Multi-Omics Analysis

A Function That Plots Heatmaps.

Description

This function plots heatmaps.

Usage

plot_hm2(study, pf_col, exp_grp_col_label, exp_grp_idx, platform_idx,
  method_hclust = "complete", nb_clust = 2, var = "raw",
  PLOT_HM_raw = TRUE, USE_CLUST = FALSE, CLUST_ROW = FALSE,
  CLUST_COL = FALSE, BREAK_TOO_EXPENSIVE = TRUE,
  colors = c("royalblue", "springgreen", "yellow", "red"), ...)

Arguments

study	An epimedtools Study RC object
pf_col	A platform column name use to label gene axis
exp_grp_col_label	An exp_grp column name use to label sample
exp_grp_idx	A vector indexing samples
platform_idx	A vector indexing genes
method_hclust	A string specifying hclust method to use
nb_clust	An interger specifying the number of cluster
var	A string defining the distance used to cluster data
PLOT_HM_raw	A boolean specifying if heatmap needs to be ploted
USE_CLUST	A boolean specifying if dendogram needs to be ploted
CLUST_ROW	A boolean specifying if row dendogram needs to be ploted
CLUST_COL	A boolean specifying if column dendogram needs to be ploted
BREAK_TOO_EXPENSIVE	A boolean specifying if too expensive operation must be breaked.
colors	Colors to interpolate; must be a valid argument to col2rgb().
...	Parameters passed to gplots::heatmap.2 function

fchuffar/epimedtools documentation built on Feb. 3, 2024, 2:21 a.m.