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Multimodal perturbation readouts (Perturb-CITE-seq, Perturb-ATAC, multiome)
enhancementNew feature or requestNew feature or requestStatus: Open.#1039 In scverse/pertpy;Spatial perturbation analysis
enhancementNew feature or requestNew feature or requestStatus: Open.#1038 In scverse/pertpy;Experimental design & power analysis for perturbation screens
enhancementNew feature or requestNew feature or requestStatus: Open.#1037 In scverse/pertpy;Drug-discovery analyses: connectivity-map / signature reversal, synergy & dose-response, genetic interactions
enhancementNew feature or requestNew feature or requestStatus: Open.#1036 In scverse/pertpy;Benchmarking & evaluation harness for perturbation prediction (baseline-aware)
enhancementNew feature or requestNew feature or requestStatus: Open.#1035 In scverse/pertpy;Response prediction: predict unseen perturbations & combinations (GEARS, CPA/chemCPA, biolord, FM embeddings)
enhancementNew feature or requestNew feature or requestStatus: Open.#1034 In scverse/pertpy;Improve
plot_effects_umap()enhancementNew feature or requestNew feature or requestStatus: Open.#1025 In scverse/pertpy;Only transfer obs columns to pseudobulk when they have one unique value when grouped
enhancementNew feature or requestNew feature or requestStatus: Open.#1023 In scverse/pertpy;Consistent significance threshold naming
enhancementNew feature or requestNew feature or requestStatus: Open.#1002 In scverse/pertpy;Consider making Jax optional
enhancementNew feature or requestNew feature or requestStatus: Open.#990 In scverse/pertpy;Add mean logFC plots for DGE
enhancementNew feature or requestNew feature or requestStatus: Open.#969 In scverse/pertpy;MUSIC-style topic modeling
enhancementNew feature or requestNew feature or requestStatus: Open.#855 In scverse/pertpy;