(a) Representative classes from RELION with 100 prescribed classes, and (b) the same as (a) except from P-RELION. (c) Representative class averages from ISAC, (d) the same as (c) except from P-ISAC (See Supplementary Figs. 12 and 14 for all the class averages). (e), (f) Summarize the statistics of the particle yields, the overall final resolutions. Four experiments under different settings are conducted (colored with green/blue). 1: RELION/P-RELION with 520 classes, 2: RELION/P-RELION with 200 classes, 3: RELION/P-RELION with 100 classes, 4: ISAC/P-ISAC with 4X down-sampling. (g) Shows the corresponding map-to-model (60S, PDB 3j79) FSC curves calculated using Phenix50. (h) Shows the overall density maps (threshold = 1.30) corresponding to 3 and 4 in (f) that are displayed according to the local resolutions using that re-implemented in CryoSparc. From left-hand side to right-hand side are the sharpen maps for RELION, P-RELION, ISAC, and P-ISAC with the B-factors of 126.4, 125.6, 124.7, and 124.4, respectively. (i) The densities of emetine.