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hicCompareMatrices without normalization #677

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yxsee opened this issue Feb 19, 2021 · 1 comment
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hicCompareMatrices without normalization #677

yxsee opened this issue Feb 19, 2021 · 1 comment
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implemented in develop

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@yxsee
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yxsee commented Feb 19, 2021

I have 2 matrices which are normalized by cell count instead of read count, in an attempt to view global increases or decreases in chromatin contacts. I would like to compare the matrices using hicCompareMatrices but I think the matrices are normalized by read count automatically before the log2ratio is performed. Is it possible to run hicCompareMatrices without the normalization step? Thanks!
@lldelisle
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Hi,
For the moment, it is not possible. I am working on it #645 ...

@joachimwolff joachimwolff mentioned this issue Jul 27, 2021
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@joachimwolff @lldelisle @yxsee