how to input bedpe file in IGV
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19 months ago
rheab1230 ▴ 140

Hello, I have a bedpe file with interacting region and its interacting score. I want to view this bedpe file in IGV. But its showing error when inputing. The file (bedpe) look like this: enter image description here

When I input the file in IGV:

File> Load from File> select .bedpe file 

It shows error:

Error loading C:\Users\OneDrive\files\hg38_ifregion_hic.bedpe: null

Does anyone know how to solve this error.Is there anything wrong with the input file. I don't know why its showing null.

IGV interaction input bedpe • 1.3k views
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are you using the correct reference (chr in bed undefined in the reference genome). Did you try to index the bed file https://software.broadinstitute.org/software/igv/igvtools ?

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