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XiaoTaoWang / TADLib

A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
GNU General Public License v3.0
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Using mouse Hi-C data processed by HiC-Pro #5

Closed oriolfornes closed 6 years ago

oriolfornes commented 6 years ago

Hi Xiao,

I have analyzed several mouse (mm10) Hi-C datasets with HiC-Pro and, after unsuccessfully try to compile different TAD callers (Arrowhead, MrTADFinder, TADbit, ...), I have decided to try yours, which not only is very easy to install, but it yields hierarchical domains (i.e. what I want).

So now that I have to apply it to my mm10 data, I have a (probably stupid) question: since no labels that identify the different bins (e.g. data_$RES_abs.bed from HiC-Pro) are provided to hitad, how does it recognize the mouse coordinates in the output? Not only human and mouse have different chromosome sizes, but also different number of chromosomes.

Thank you in advance, and keep up the good work!

oriolfornes commented 6 years ago

Nevermind, I think I get it! Pretty straightforward actually 👍