SpaGTL.aucell#

SpaGTL.aucell(adata, auc_threshold=0.05, noweights=False, normalize=False, random_state=0, num_workers=1, copy=False)[source]#

Compute the regulon activity AUCell matrix [Aibar17].

Parameters:

adata : AnnData: Annotated data matrix.
auc_threshold : float (default: 0.05): The fraction of the ranked genome to take into account for the calculation of the Area Under the recovery Curve.
noweights : bool (default: False): Should the weights of the genes part of a signature be used in calculation of enrichment?
normalize : bool (default: False): Normalize the AUC values to a maximum of 1.0 per regulon.
random_state : int (default: 0): Change to use different initial states for the optimization.
num_workers : int (default: 1): The number of cores to use.
copy : bool (default: False): Return a copy instead of writing to adata.

Return type:

Optional[AnnData]

Returns:

: Depending on copy, returns or updates adata with the following fields.