heatmap_diff_methylation_in_genomic_features: Heatmap for mean methylation in genomic features

In jokergoo/cotools: R functions

Description

Heatmap for mean methylation in genomic features

Usage

heatmap_diff_methylation_in_genomic_features(gr, annotation,
    annotation_color = structure(seq_along(unique(annotation)), names = unique(annotation)),
    txdb = NULL, gf_list = NULL, gf_type = "percent",
    min_mean_range = 0.2, cutoff = 0.05, adj_method = "BH", title = NULL,
    cluster_cols = c("subgroup", "all", "none"), ha = NULL, ...)

Arguments

gr	object returned by get_mean_methylation_in_genomic_features
annotation	subtype of samples
annotation_color	colors of subtypes
txdb	A TxDb object
gf_list	a list of genomic features which are used as row annotations
gf_type	how to overlap genomic features
min_mean_range	minimal range between mean value in subtypes
cutoff	if subtype information is provided, p-value for the oneway ANOVA test
adj_method	how to calculate adjusted p-values
title	title of the plot
cluster_cols	how to cluster columns
ha	column annotations added to the heatmap
...	pass to Heatmap

Examples

# There is no example
NULL

jokergoo/cotools documentation built on May 19, 2019, 6:24 p.m.