heatmap_diff_methylation_in_genomic_features: Heatmap for mean methylation in genomic features

Description Usage Arguments Examples

View source: R/methylation_genomic_features.R

Description

Heatmap for mean methylation in genomic features

Usage

1
2
3
4
5
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

1
2
# There is no example
NULL

jokergoo/cotools documentation built on May 18, 2017, 6:05 a.m.