Resolution compatibility between .cool file and .bedpe file for pile-ups of predefined regions pairs

open2c / coolpuppy

A versatile tool to perform pile-up analysis on Hi-C data in .cool format.

MIT License

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Resolution compatibility between .cool file and .bedpe file for pile-ups of predefined regions pairs #107

Closed Soh-hyon closed 1 year ago

Soh-hyon commented 1 year ago

Hi, I'm Soh-hyon:)

I'm trying to average predefined 2D regions corresponding to specific loops. I generated 1kb-resolution .cool file using Cooler and .bedpe file using FitHiChIP. When using FitHiChIP, I set binsize as 5 kb. (Actually, there was no significant loop in smaller bin size.)

Does the resolution of .cool file and .bedpe have to be the same?

Phlya commented 1 year ago

No Soh-hyon - no, that doesn't matter.