downsample Hi-C contacts/equalisation of valid pairs between different samples

deeptools / HiCExplorer

HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.

https://hicexplorer.readthedocs.org

GNU General Public License v3.0

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downsample Hi-C contacts/equalisation of valid pairs between different samples #674

Closed Drosophilid closed 3 years ago

Drosophilid commented 3 years ago

Hi, I want to compare the Hi-C data of different tissues but the number of valid Hi-C pairs differ between the samples. I have already created my matrix using Hi-Explorer. is there any option in Hi-Explorer or way to down pairs to equalize with others or vice versa?

Thank you

joachimwolff commented 3 years ago

hicNormalize with the option 'smallest': https://hicexplorer.readthedocs.io/en/latest/content/tools/hicNormalize.html#hicnormalize