overlap_heatmap: Generate heatmap of percentage overlap

In neurogenomics/EpiCompare: Comparison, Benchmarking & QC of Epigenomic Datasets

Generate heatmap of percentage overlap

Description

This function generates a heatmap showing percentage of overlapping peaks between peak files.

Usage

overlap_heatmap(
  peaklist,
  interact = TRUE,
  draw_cellnote = TRUE,
  fill_diag = NA,
  verbose = TRUE
)

Arguments

peaklist	A list of peak files as GRanges object. Files must be listed and named using list(). e.g. list("name1"=file1, "name2"=file2). If not named, default file names will be assigned.
interact	Default TRUE. By default heatmap is interactive. If FALSE, heatmap is static.
draw_cellnote	Draw the numeric values within each heatmap cell.
fill_diag	Fill the diagonal of the overlap matrix.
verbose	Print messages.

Value

An interactive heatmap

Examples

### Load Data ###
data("encode_H3K27ac") # example peakfile GRanges object
data("CnT_H3K27ac") # example peakfile GRanges object
### Create Named List ###
peaklist <- list("encode"=encode_H3K27ac, "CnT"=CnT_H3K27ac)
### Run ###
my_heatmap <- overlap_heatmap(peaklist = peaklist) 

neurogenomics/EpiCompare documentation built on April 30, 2024, 3:58 p.m.