plot_contacts_rotated: Plot a rotated HiC map from a contact matrix.

In qenvio/hicvidere:

Description

This function takes a contact matrix and plots a HiC map

Usage

plot_contacts_rotated(mat, m1 = NULL, m2 = NULL,
  transformation = function(x) log10(x + min(x[x > 0], na.rm = TRUE)),
  color = viridis(100), sym = FALSE)

Arguments

mat	Input contact matrix. Usually the output of get_contacts or make_contacts
m1	Label of the lower panel
m2	Label of the upper panel
transformation	Transformation of the data to ease the visualization. Dafaults to log10
color	A vector of colors (palette). Dafaults to viridis(100)
sym	Should the color code be symmetric around 0?. Dafaults to FALSE

Value

A nice plot

See Also

read_tabix and get_contacts for data retrieval

Examples

plot(0)

qenvio/hicvidere documentation built on May 26, 2019, 11:35 a.m.