Generate heatmap of percentage overlap

Source: R/overlap_heatmap.R

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

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) 
#> --- Running overlap_heatmap() ---
#> Warning: fill_diag must =NULL due to a known bug in the package 'heatmaply'.
#> Genreating precision-recall matrix.
#> overlap_heatmap(): Done in 2.1s.