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deeptools / pyGenomeTracks

python module to plot beautiful and highly customizable genome browser tracks
GNU General Public License v3.0
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hicPlotTADs in circos #397

Open mujahida87 opened 2 years ago

mujahida87 commented 2 years ago

Hi, I was wondering if I can plot the TADs in circos format in pyGenomeTracks, similar to the attached screenshot? I'm using the following version of hicExplorer.

--Python3/3.9.0 --hicexplorer/3.7.1/

Thanks Screenshot 2022-03-04 at 10 20 20 Ref: Renschler, G., Richard, G., Valsecchi, C.I.K., Toscano, S., Arrigoni, L., Ramírez, F. and Akhtar, A., 2019. Hi-C guided assemblies reveal conserved regulatory topologies on X and autosomes despite extensive genome shuffling. Genes & development, 33(21-22), pp.1591-1612.

lldelisle commented 2 years ago

Hi @mujahida87 , Thanks for your interest in pyGenomeTracks. We rely on matplotlib and I don't think matplotlib can do this. I think the transformation was done after with Illustrator or Inkscape.

mujahida87 commented 2 years ago

Okay, thank you @lldelisle

MarineBergot commented 2 years ago

Hi @mujahida87 by any chance did you find how to do that? i would like do to the same, but in couldn't find anything on circos! thanks!

mujahida87 commented 2 years ago

Hi @MarineBergot, No! I asked the writer of the above circus figure, he said he did it manually.