API for dputhier/scigenex
The scigenex package (Single-Cell Informative GENe Explorer)
| Global functions | |
|---|---|
| %in%,character,ClusterSet-method | Man page |
| .onAttach | Source code |
| ClusterSet-class | Man page |
| [,ClusterSet,ANY,ANY,ANY-method | Man page |
| call_louvain_clusterset | Man page Source code |
| call_walktrap_clusterset | Man page Source code |
| center_and_rotate | Source code |
| check_format_cluster_set | Man page Source code |
| check_inter | Source code |
| clust_names | Man page |
| clust_names,ClusterSet-method | Man page |
| clust_size | Man page |
| clust_size,ClusterSet-method | Man page |
| cluster_set_from_matrix | Man page Source code |
| cluster_set_from_seurat | Man page Source code |
| cluster_set_report | Man page Source code |
| cluster_set_to_xls | Man page |
| cluster_set_to_xls,ClusterSet-method | Man page |
| cluster_stats | Man page |
| cluster_stats,ClusterSet-method | Man page |
| col_names | Man page |
| col_names,ClusterSet-method | Man page |
| colors_for_gradient | Man page Source code |
| compare_genesets | Man page Source code |
| complex9 | Man page |
| complex9Noisy | Man page |
| construct_new_graph | Man page |
| create_3_rnd_clust | Man page Source code |
| create_4_rnd_clust | Man page Source code |
| create_rand_str | Man page Source code |
| dim,ClusterSet-method | Man page |
| discrete_palette | Man page Source code |
| display_hull | Man page Source code |
| do_closest_neighbor_graph | Man page Source code |
| do_reciprocal_neighbor_graph | Man page Source code |
| enrich_go | Man page |
| enrich_go,ClusterSet-method | Man page |
| filter_by_dot_prod | Man page Source code |
| filter_cluster_sd | Man page Source code |
| filter_cluster_size | Man page Source code |
| filter_nb_supporting_cells | Man page Source code |
| gene_cluster | Man page |
| gene_cluster,ClusterSet-method | Man page |
| gene_clustering | Man page Source code |
| getFlippedTissueCoordinates | Man page Source code |
| get_data_for_scigenex | Man page Source code |
| get_genes | Man page Source code |
| get_neighbor_class | Source code |
| get_verbosity | Man page Source code |
| grep_clust | Man page |
| grep_clust,ClusterSet-method | Man page |
| hyper_fun | Source code |
| install_mcl | Man page Source code |
| keep_dbf_graph | Man page |
| load_example_dataset | Man page Source code |
| lymph_node_selected_spot | Man page |
| lymph_node_selected_spot_2 | Man page |
| mcl_system_cmd | Man page Source code |
| median_of_max_dot_prod | Source code |
| merging_neighborhood | Source code |
| module_quality_scores | Man page |
| module_quality_scores,ClusterSet-method | Man page |
| nclust | Man page |
| nclust,ClusterSet-method | Man page |
| ncol.ClusterSet | Man page |
| nrow.ClusterSet | Man page |
| plot_clust_enrichments | Man page |
| plot_clust_enrichments,ClusterSet-method | Man page |
| plot_cluster_stats | Man page Source code |
| plot_cmp_genesets | Man page Source code |
| plot_dist | Man page Source code |
| plot_ggheatmap | Man page |
| plot_ggheatmap,ClusterSet-method | Man page |
| plot_heatmap | Man page Source code |
| plot_markers_to_clusters | Man page |
| plot_markers_to_clusters,ClusterSet-method | Man page |
| plot_profiles | Man page Source code |
| plot_spatial | Man page Source code |
| plot_spatial_panel | Man page Source code |
| plot_stratum | Man page Source code |
| print_msg | Man page Source code |
| print_stat | Man page Source code |
| rename_clust | Man page |
| rename_clust,ClusterSet-method | Man page |
| reorder_clust | Man page |
| reorder_clust,ClusterSet-method | Man page |
| reorder_genes | Man page |
| reorder_genes,ClusterSet-method | Man page |
| row_names | Man page |
| row_names,ClusterSet-method | Man page |
| select_genes | Man page Source code |
| set_verbosity | Man page Source code |
| show,ClusterSet-method | Man page |
| show_methods | Man page Source code |
| stratify_seurat | Man page Source code |
| top_by_go | Man page |
| top_by_go,ClusterSet-method | Man page |
| top_genes | Man page |
| top_genes,ClusterSet-method | Man page |
| visium_hull | Source code |
| viz_enrich | Man page |
| viz_enrich,ClusterSet-method | Man page |
| which_clust | Man page |
| which_clust,ClusterSet-method | Man page |
