14124ebc79621009018907a2f0564b52b557ba92,scanpy/tools/score_genes.py,,score_genes,#Any#Any#Any#Any#Any#Any#Any#Any#Any#,11

Before Change

    elif len(gene_list) == 1:
        score = _adata[:, gene_list].X - np.nanmean(_adata[:, control_genes].X.toarray(), axis=1)
    else:
        score = np.nanmean(_adata[:, gene_list].X.toarray(), axis=1) - np.nanmean(_adata[:, control_genes].X.toarray(), axis=1)
    adata.obs[score_name] = pd.Series(np.array(score).ravel(), index=adata.obs_names)

    logg.info("    finished", time=True, end=" " if settings.verbosity > 2 else "\n")

After Change

    X_list = _adata[:, gene_list].X
    if issparse(X_list): X_list = X_list.toarray()
    X_control = _adata[:, control_genes].X
    if issparse(X_control): X_control = X_control.toarray()
    X_control = np.nanmean(X_control, axis=1)

    if len(gene_list) == 0:
        // We shouldn"t even get here, but just in case

Instances