Annotating chromatin interactions (interactions generated from HOMER)

Question

[s.singh]

Hi All,

I am using HOMER to analyse Hi-C data of Hordeum vulgare (Barley). I have computed the significant chromatin interactions and now I want to annotate these interactions. HOMER doesn't have an inbuilt genome of barley in it, so, I am not able to annotate the interactions. I tried using GFF and GTF file, but it is not working.

Can anyone suggest me how to annotate chromatin interactions? Is there any tool available for this?

Thanks Swadha