We constructed independent DUDE-Z HNSWs for all hyperparameter combinations and evaluated their performance by average pAUC 10 across all DUDE-Z targets obtained with RAD (Supplementary Figure and Supplementary Table ). We compared HNSW construction times, measured on UCSF's Wynton HPC using 50 cores of a 2.00GHz AMD EPYC 7662, against their pAUC10 for each hyperparameter combination (Supplementary Figure ).