Connectivity of a query to PCLs is computed using the same approach described earlier for summarization of connectivities to a perturbagen across cell lines. Given a vector of normalized connectivity scores for the members of a PCL p, relative to query q, in a given cell line, we apply the maximum quantile procedure to obtain a summarized NCS value (NCSPCL). We then compute a PCL-level τ from NCSPCL by comparison to a reference distribution comprised of PCL-aggregated scores corresponding to the Qref queries described above.
