How to use hicFindEnrichedContacts?

Question

[sara.a.grimm]

I'd like to use hicFindEnrichedContacts (in HiCExplorer tools), but the documentation is very sparse. For example, I don't think the parameter for the input isn't even included among the options -- unless I'm completely misunderstanding what this tool is supposed to be doing. Does anyone have an example working command for this tool that I could use to get started? Thanks!

[sara.a.grimm]

Great, thank you. I modified the code to include your fix and it seems to be running properly now.

Answer 1

[Devon Ryan]

This was fixed in June but there hasn't been a related release yet. The only thing I can recommend is to install the develop branch from github then. I'll push the current developers to push out a new release soon.

[BenHu]

Recently, I am using hicFindEnrichedContacts to detect frequently interacting regions(FIREs). Then I want to obtain these FIREs. Could you tell me how to get it? Thanks in advance! Best,

[Devon Ryan]

I believe you received a reply from Vivek on the mailing list (or elsewhere here).