refactor + image format option + robust corr

mortazavilab / PyWGCNA

PyWGCNA is a Python package designed to do Weighted Gene Correlation Network analysis (WGCNA)

MIT License

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Closed tariks closed 1 year ago

tariks commented 1 year ago

Main contributions are:

bicor method using pingouin replaces some np.corrcoef calls
add file extension option to WGCNA class to enable different image formats. pdf set to default over png as vectors are preferred for publications
general refactorings following PEP style rules.
network type default set to signed instead of signed hybrid to avoid some bugs I was getting
TOMDenom to mean as default to reduce frequency of mashup modules.