how to prepare the a special bed fild for Higlass
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Hey guys, I have downloaded a special bed file, the file contains the information about the subcompartment of the genome(the fourth column), which I believe is encoded with the red blue green color encoded in the last column), so how should prepare this kind of data for higlass? thanks a lot!
chr19 0 200000 NA 0 . 0 200000 255,255,255
chr19 200000 500000 B1 -1 . 200000 500000 220,20,60
chr19 500000 3800000 A1 2 . 500000 3800000 34,139,34
chr19 3800000 3900000 B1 -1 . 3800000 3900000 220,20,60
Depends... what are you trying to do with it?
If you'd like to just see those regions, you can aggregate it using clodius: https://docs.higlass.io/data_preparation.html#bed-files