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WangJiuming / YOLOOP

MIT License
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The questions about the visualization of detect results #5

Closed qqyanyang closed 2 months ago

qqyanyang commented 2 months ago

Hello, I have recently started to study bioinformatics and I would like to ask you some questions. After using detcet.py to achieve reproduction and generating the bedpe format file, how should I visualize it? Thanks a lot！

WangJiuming commented 2 months ago

Hi, thanks for your interest in our work!

To visualize the results predicted by YOLOOP, generally you can follow the steps below:

  1. first select a region of interest (e.g., chr14:33,000,000:36,000,000);
  2. read the bedpe file and filter the predicted loops within this region;
  3. plot the contact map of this region (e.g., as a heatmap) together with the filtered loops (e.g., as dots)

Feel free to let us know if you have any follow-up questions.

Best, Jiuming

qqyanyang commented 2 months ago

Thanks for your patience，and I'll give it a try. Thanks a lot!

WangJiuming commented 2 months ago

No problem. Closing this for now. Feel free to re-open if there's any further question :)