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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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Pearson correlation matrix #781

Open BenxiaHu opened 2 years ago

BenxiaHu commented 2 years ago

hello, I have a question on pearson correlation matrix (https://hicexplorer.readthedocs.io/en/latest/content/example_usage.html#a-b-compartment-analysis): how to you calculate the correlation for bewteen 2 loci (such as 100kb) per chromosome? Becasue each locus has only one value (obs/exp), I do not understand why HiCExploer can get the correlation for each locus. Looking forward to your reply!

https://hicexplorer.readthedocs.io/en/latest/content/example_usage.html#a-b-compartment-analysis

kalavattam commented 2 years ago

You can find the answer in this 2009 publication, among others.