pyramidannotations: Rotated pyramid annotations

In robinweide/GENOVA: GENOVA: expore the Hi-C

Rotated pyramid annotations

Description

Add annotations to a pyramid plot that also require the 45 degree rotation.

Usage

add_tads(bed, colour = "#1faee3", ...)

add_loops(bedpe, colour = "#1faee3", shape = 1, ...)

Arguments

bed	A BED-formatted data.frame with the following 3 columns: A character giving the chromosome names. An integer with start positions. An integer with end positions.
colour, shape, ...	Additional parameters to pass to ggplot2::layer().
bedpe	A BEDPE-formatted data.frame with the following 6 columns: A character giving the chromosome names of the first coordinate. An integer giving the start positions of the first coordinate. An integer giving the end positions of the first coordinate. A character giving the chromosome names of the second coordinate. An integer giving the start positions of the second coordinate. An integer giving the end positions of the second coordinate.

Value

A mark_layer object.

Examples

## Not run: 
p <- pyramid(exp, "chr2", 25e6, 30e6)
p + add_tads(tads)
p + add_loops(loops)

## End(Not run)

robinweide/GENOVA documentation built on March 14, 2024, 11:16 p.m.