Ensemble-networkx

Latest version: v2024.2.5

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2023.9.25

* 2023.9.25 - Added `AggregateNetwork` class, `evenness/entropy` calculations, and `.mad` for median absolute devation to `Symmetry`.
* 2023.9.5 - Changed `method="biweight_midcorrelation"` to `method="bicor"`. Changed default method to `pearson` instead of `rho` to generalize (though, please use `rho`, `phi`, or `pcorr_bshrink` for compositional data). Added `partial_correlation_with_basis_shrinkage` support from `comositional` package using `method="pcorr_bshrink"` to use similar terminology with `Propr` and `ppcorr` R packages.

2023.8.15

2023.8.15 - Added ClusteredNetwork for wrapper around community_detection and edge_cluster_cooccurrence (formerly known as cluster_homogeneity).

2023.8.14 - Changed dense to redundant to be more consistent with scikit-bio. Added confidence_interval to ensemble networks. Changed default metrics to np.median and stats.median_abs_deviation. Changed default sampling_size from 0.618... to 1.0 and with_replacement=False to with_replacement=True.

2023.7.20

2023.7.18

Fixed issue with `SampleSpecificPerturbationNetwork` not being able to handle `X.index` with a `.name` that was not `NoneType`. Created a hack to allow `pd.MultiIndex` support (converts to strings and warns). Made `include_reference_for_samplespecific=True` the new default which creates a clone of the reference and uses that as the background network. Added `is_square` to `Symmetric` object.

2020.09.04

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