Consensus output format?

[Ziwei-Liu]

Hi team,

Thank you for your work. I used armatus to call TADs in my genome, and a consensus TAD table was produced at a resolution of 40kbps. I noticed that many TADs are closely adjacent, like shows below:

LG01	680000	759999
LG01	760000	879999
LG01	880000	959999
LG01	1080000	1199999
LG01	1200000	1279999
LG01	1280000	1359999
LG01	1360000	1719999
LG01	1720000	1799999
LG01	1800000	1879999
LG01	2120000	2239999
LG01	2320000	2399999
LG01	2400000	2479999
LG01	2480000	2559999
LG01	2680000	2759999
LG01	2760000	2879999

1. How should I distinguish TAD boundries from this? Is there 15 distinct TADs, or should i merge adjacent TADs like LG01 2680000 2759999 and LG01 2760000 2879999 together into a large TAD as LG01 2680000 2879999?
2. Is that means the region between two non-adjacent TADs, like the region between LG01 880000 959999 and LG01 1080000 1199999, is a TAD boundry, or no matter how large it is, all regions between calculated TADs should be treated as TAD boundries? In another word, should LG01 2320000 2399999 and LG01 2400000 2479999 has a TAD boundry of 0 bps, or should the two adjacent region just be treated as a large TAD without considering any boundries in it?

Thank you!