Closed dosumis closed 4 months ago
The obsm seems to have always the same embedding:
obsm
"X_pca", "X_tsne_perplexity_1", "X_tsne_perplexity_10", "X_tsne_perplexity_15", "X_tsne_perplexity_20", "X_tsne_perplexity_25", "X_tsne_perplexity_30", "X_tsne_perplexity_35", "X_tsne_perplexity_40", "X_tsne_perplexity_45", "X_tsne_perplexity_5", "X_tsne_perplexity_50", "X_umap_neighbors_n_neighbors_10", "X_umap_neighbors_n_neighbors_100", "X_umap_neighbors_n_neighbors_15", "X_umap_neighbors_n_neighbors_20", "X_umap_neighbors_n_neighbors_25", "X_umap_neighbors_n_neighbors_3", "X_umap_neighbors_n_neighbors_30", "X_umap_neighbors_n_neighbors_5", "X_umap_neighbors_n_neighbors_50"
Should we leave all the options or pick one of each?
Decided in the 2024-04-16 Meeting, all embedding will be available and use "X_umap_neighbors_n_neighbors_20" as default, to be added in uns.
uns
The
obsm
seems to have always the same embedding:Should we leave all the options or pick one of each?