Table 2.

HiCmapTools runtimes for different query modes, map resolutions, and map formats of the fly map (dm3), where runtimes are recorded in user mode

Resolution	Format	Size	Query	Per.Test	Time (sec)	ps
30 k	bin-contact/text	67 MB	bait	100	6.23	Section “bait query example”
1 k	bin-contact/binary	2.4 GB	loop	0	11.34	Section “TAD loop”
				100	11.45
			TAD	0	11.32	Section “TAD intra-density”
				100	14.30
	bin-contact/text	3.2 GB	loop	0	345.62
				100	525.14
			TAD	0	344.43
				100	525.54