decoupler.get_gsea_df

decoupler.get_gsea_df(df, stat, net, source='source', target='target', times=1000, min_n=5, seed=42, verbose=False)

Wrapper to run GSEA for results of differential analysis (long format dataframe).

Parameters:

dfDataFrame: Long format DataFrame with features to be ranked. Assumes features are indexes.
statstr: Name of the column containing the ranking metric.
netDataFrame: Network in long format.
sourcestr: Column name in net with source nodes.
targetstr: Column name in net with target nodes.
timesint: How many random permutations to do.
min_nint: Minimum of targets per source. If less, sources are removed.
seedint: Random seed to use.
verbosebool: Whether to show progress.

Returns: