decoupler.get_progeny

decoupler.get_progeny(organism='human', top=100)

Pathway RespOnsive GENes for activity inference (PROGENy).

Wrapper to access PROGENy model gene weights. Each pathway is defined with a collection of target genes, each interaction has an associated p-value and weight. The top significant interactions per pathway are returned.

Parameters:

organismstr

Which organism to use. Only human and mouse are available.

topint

Number of genes per pathway to return.

Returns:

pDataFrame

Dataframe in long format containing target genes for each pathway with their associated weights and p-values.