opendvp.tl.stats_anova

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opendvp.tl.stats_anova#

stats_anova(adata, grouping, FDR_threshold=0.05, posthoc='pairwise_tukey')#

Perform one-way ANOVA for all columns of an AnnData object across all groups in a categorical column.

Parameters:

  • adata (anndata.AnnData) – AnnData object.

  • grouping (str) – Column header in adata.obs, categorizing different groups to test.

  • FDR_threshold (float, default 0.05) – The threshold for the FDR correction.

  • posthoc (str or None, default "pairwise_tukey") – Post-hoc test to perform on significant features. Currently only ‘pairwise_tukey’ is supported. If None, no post-hoc test is run.

Returns:

A new AnnData object with ANOVA results in .var and post-hoc results for significant features in .uns['anova_posthoc'].

Return type:

anndata.AnnData

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