Index _ | A | B | C | D | E | F | G | H | I | K | L | M | N | P | Q | R | S | T | U _ __init__() (MgsaResult method) A add_external_validation_markers() (in module grassp.pp) add_markers() (in module grassp.pp) aggregate_proteins() (in module grassp.pp) aggregate_samples() (in module grassp.pp) align_adatas() (in module grassp.tl) aligned_umap() (in module grassp.pl) (in module grassp.tl) annotate_uniprot_cc() (in module grassp.pp) B bait_volcano_plots() (in module grassp.pl) C calculate_cluster_enrichment() (in module grassp.tl) calculate_enrichment_vs_all() (in module grassp.pp) calculate_enrichment_vs_untagged() (in module grassp.pp) calculate_interfacialness_score() (in module grassp.tl) calculate_mgsa() (in module grassp.tl) calculate_qc_metrics() (in module grassp.pp) calculate_replicate_cv() (in module grassp.pp) calinski_habarasz_score() (in module grassp.tl) ccompass() (in module grassp.tl) ccompass_default_params() (in module grassp.tl) class_balance() (in module grassp.tl) competitive_propagation() (in module grassp.tl) D dendrogram_cherry_pairs() (in module grassp.tl) diagnostics (MgsaResult attribute) download_prolocdata() (in module grassp.ds) drop_excess_MQ_metadata() (in module grassp.pp) E embedding_prob() (in module grassp.pl) enrichment_to_cluster_distribution() (in module grassp.tl) F filter_min_consecutive_fractions() (in module grassp.pp) filter_proteins() (in module grassp.pp) filter_proteins_per_replicate() (in module grassp.pp) filter_samples() (in module grassp.pp) G get_n_nearest_neighbors() (in module grassp.tl) grassp.ds module grassp.io module grassp.pl module grassp.pp module grassp.tl module H hein_2024() (in module grassp.ds) hek_atps_2025() (in module grassp.ds) hek_dc_2025() (in module grassp.ds) highly_variable_proteins() (in module grassp.pl) (in module grassp.pp) I impute_gaussian() (in module grassp.pp) impute_knn() (in module grassp.pp) independent_diffusion() (in module grassp.tl) itzhak_2016() (in module grassp.ds) K knn_annotation() (in module grassp.tl) knn_f1_score() (in module grassp.tl) knn_violin() (in module grassp.pl) L leiden_mito_sweep() (in module grassp.tl) list_prolocdata_files() (in module grassp.ds) load_dataset() (in module grassp.ds) load_gmt() (in module grassp.tl) M map_estimate (MgsaResult attribute) marker_profiles() (in module grassp.pl) marker_profiles_split() (in module grassp.pl) markov_clustering() (in module grassp.tl) merge_clusters_go() (in module grassp.tl) merge_small_clusters() (in module grassp.tl) mgsa() (in module grassp.tl) mgsa_to_cluster_distribution() (in module grassp.tl) MgsaResult (class in grassp.tl) module grassp.ds grassp.io grassp.pl grassp.pp grassp.tl mr_plot() (in module grassp.pl) mr_score() (in module grassp.tl) N neighbors() (in module grassp.pp) normalize_total() (in module grassp.pp) P paga_dendrogram() (in module grassp.tl) pca_prob() (in module grassp.pl) protein_clustermap() (in module grassp.pl) Q qsep_boxplot() (in module grassp.pl) qsep_heatmap() (in module grassp.pl) qsep_score() (in module grassp.tl) R read_diann() (in module grassp.io) read_fragpipe() (in module grassp.io) read_maxquant() (in module grassp.io) read_prolocdata() (in module grassp.io) remodeling_sankey() (in module grassp.pl) remodeling_score() (in module grassp.pl) (in module grassp.tl) remove_contaminants() (in module grassp.pp) remove_cRAP_proteins() (in module grassp.pp) resolve_diffusion() (in module grassp.tl) resolve_soft_labels() (in module grassp.tl) S sample_heatmap() (in module grassp.pl) schessner_2023() (in module grassp.ds) set_sensible_compartment_colors() (in module grassp.pp) sets_results (MgsaResult attribute) silhouette_score() (in module grassp.tl) soft_cluster_annotation() (in module grassp.tl) svm_annotation() (in module grassp.tl) svm_train() (in module grassp.tl) T tagm_map_contours() (in module grassp.pl) tagm_map_pca_ellipses() (in module grassp.pl) tagm_map_predict() (in module grassp.tl) tagm_map_train() (in module grassp.tl) ternary() (in module grassp.pl) to_knn_graph() (in module grassp.tl) tsne_prob() (in module grassp.pl) U umap_prob() (in module grassp.pl) uniprot_compartment_goterms() (in module grassp.ds)
