🗺️Visualizing UMAP Clusterings of Latent Labels
To plot cryoDRGN latent space UMAP clusterings colored by CryoBench ground truth labels, first run cryodrgn analyze with the current version of cryoDRGN to get UMAP results, and then load the relevant CryoBench environment to run the plotting script:
$ conda activate cryodrgn_model
(cryodrgn_model)$ cryodrgn analyze cryobench_input/003_IgG-1D_cdrgn2/ 19
$ conda activate cryodrgn_bench
(cryodrgn_bench)$ python ~/dev/CryoBench/metrics/visualization/visualize_umap_IgG-1D.py cryobench_input/003_IgG-1D_cdrgn2/ -o umap-plots/ --num_imgs 1000
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