regionOverlaps: regionOverlaps

In ETHZ-INS/epiwraps: epiwraps: Wrappers for plotting and dealing with epigenomics data

regionOverlaps

Description

A wrapper for visualizing pairwise-wise overlaps across multiple sets of genomic ranges.

Usage

regionOverlaps(
  listOfRegions,
  ignore.strand = TRUE,
  cluster = length(listOfRegions) > 2,
  color = viridis::plasma(100),
  number_color = "black",
  ...
)

Arguments

listOfRegions	A named list of two or more (non-empty) 'GRanges'
ignore.strand	Logical; whether to ignore strand for overlaps
cluster	Logical; whether to cluster rows/columns
color	Heatmap colorscale
number_color	Values color
...	Passed to pheatmap

Value

A 'Heatmap' showing the overlap coefficient as colors, and the overlap size as values.

Examples

# random list of GRanges:
grl <- lapply(c(A=10,B=20,C=30), FUN=function(x){
  GRanges("seq1", IRanges(runif(x,1,1000), width=20))
})
regionOverlaps(grl)

ETHZ-INS/epiwraps documentation built on Dec. 22, 2024, 4:05 a.m.