plotdom: visualize hierarchical domains

In wbaopaul/rGMAP: Call hierarchical chromatin domains from HiC matrix by GMAP

Description

visualize hierarchical domains

Usage

plotdom(hic_obj, index_obj = NULL, hiertads_gmap, chr0 = NULL,
  start_bin, end_bin, cthr = 20, resl = 10000)

Arguments

hic_obj	the hic_obj in the same format as used for calling TADs
index_obj	the index_obj used for calling TADs
hiertads_gmap	the hierarchical domains outputted by GMAP
chr0	the selected single chromosome ('chr1' for example)
start_bin	the start bin of the selected chromosome
end_bin	the end bin of the selected chromosome
cthr	the upper bound count threshold for color, default 20
resl	reslution of Hi-C data, default 10000, if resl=1, it works on simulated data

wbaopaul/rGMAP documentation built on Nov. 18, 2020, 9:37 p.m.