API for whtns/seuratTools
Tools for Managing Seurat Objects
| Global functions | |
|---|---|
| %>% | Man page |
| %||% | Man page |
| .onLoad | Source code |
| .send_enrichr_query | Man page Source code |
| Monocle2_diffex | Man page Source code |
| SetDefaultAssay | Man page Source code |
| add_census_slot | Man page Source code |
| add_percent_mito | Man page Source code |
| add_read_count_col | Man page Source code |
| allTranscripts | Man page |
| allTranscriptsui | Man page |
| annotate_cell_cycle | Man page Source code |
| annotate_excluded | Man page Source code |
| append_to_project_db | Man page |
| arrange_ptime_heatmaps | Man page Source code |
| assign_clusters_to_cds | Man page Source code |
| build_bigwig_db | Man page Source code |
| by_row_corr_between_pt_heatmaps | Man page Source code |
| calc_cor_across_heatmaps | Man page Source code |
| calc_pseudotime_heatmap | Man page Source code |
| ccScore | Man page |
| ccScoreui | Man page |
| cells_selected | Man page Source code |
| celltype_markers | Man page |
| changeEmbedParams | Man page Source code |
| changeEmbedParamsui | Man page Source code |
| clustering_workflow | Man page Source code |
| combine_cols | Man page Source code |
| combine_looms | Man page Source code |
| convert_human_seu_to_mouse | Man page Source code |
| convert_monoclev2_to_seuv3 | Man page Source code |
| convert_mouse_seu_to_human | Man page Source code |
| convert_seu_list_to_multimodal | Man page |
| convert_seu_to_cds | Man page Source code |
| convert_seurat_to_sce | Man page |
| convert_seuv3_to_monoclev2 | Man page Source code |
| convert_symbols_by_species | Man page Source code |
| convert_to_h5ad | Man page Source code |
| convert_v3_to_v5 | Man page |
| create_proj_matrix | Man page Source code |
| create_project_db | Man page Source code |
| cross_check_heatmaps | Man page Source code |
| cross_species_integrate | Man page Source code |
| default_helper | Man page Source code |
| diffex | Man page Source code |
| diffexui | Man page Source code |
| dockerSeuratApp | Man page Source code |
| dropdownButton | Man page Source code |
| filter_low_rc_cells | Man page Source code |
| filter_merged_seu | Man page Source code |
| filter_merged_seus | Man page Source code |
| filter_rows_to_top | Man page Source code |
| findMarkers | Man page |
| findMarkersui | Man page |
| find_all_markers | Man page |
| flip_pseudotime | Man page |
| format_new_metadata | Man page Source code |
| format_pathway_table | Man page Source code |
| gene_test_plot | Man page Source code |
| genes_to_transcripts | Man page Source code |
| getEnrichedPathways | Man page Source code |
| get_meta | Man page Source code |
| get_transcripts_from_seu | Man page Source code |
| global_cellalign | Man page Source code |
| harmony_integrate | Man page Source code |
| human_to_mouse_homologs | Man page |
| install_scvelo | Source code |
| integrateProj | Man page Source code |
| integrateProjui | Man page Source code |
| integration_workflow | Man page Source code |
| label_transfer | Man page Source code |
| learn_graph_by_resolution | Man page Source code |
| list_plot_types | Man page Source code |
| load_bigwigs | Man page Source code |
| load_counts_by_tximport | Man page Source code |
| load_meta | Man page Source code |
| load_seurat_from_proj | Man page Source code |
| load_seurat_path | Man page Source code |
| local_cellalign | Man page Source code |
| make_bigwig_db | Man page |
| make_seuratTools_clean_names | Man page |
| mem_str | Man page |
| merge_small_seus | Man page Source code |
| metadata_from_batch | Man page |
| minimalSeuratApp | Man page Source code |
| monocle | Man page |
| monocle_module_heatmap | Man page |
| monocleui | Man page |
| old_harmony_integrate | Source code |
| pad_sample_files | Man page Source code |
| pathwayEnrichment | Man page |
| pathwayEnrichmentui | Man page |
| plotClustree | Man page Source code |
| plotClustree_UI | Man page Source code |
| plotCoverage | Man page |
| plotCoverage_UI | Man page |
| plotDimRed | Man page Source code |
| plotDimRedui | Man page Source code |
| plotHeatmap | Man page Source code |
| plotHeatmapui | Man page Source code |
| plotReadCount | Man page |
| plotReadCountui | Man page |
| plotVelocity | Man page |
| plotVelocityui | Man page |
| plotViolin | Man page Source code |
| plotViolinui | Man page Source code |
| plot_all_ptimes | Man page Source code |
| plot_all_transcripts | Man page Source code |
| plot_cds | Man page Source code |
| plot_cell_cycle_distribution | Man page Source code |
| plot_cells | Man page Source code |
| plot_feature | Man page Source code |
| plot_feature_in_ref_query_ptime | Man page Source code |
| plot_gene_coverage_by_var | Man page Source code |
| plot_markers | Man page Source code |
| plot_monocle_features | Man page Source code |
| plot_multiple_branches_heatmap | Man page Source code |
| plot_pseudotime | Man page Source code |
| plot_pseudotime_heatmap | Man page Source code |
| plot_readcount | Man page Source code |
| plot_scvelo | Man page Source code |
| plot_transcript_composition | Man page Source code |
| plot_var | Man page Source code |
| plot_violin | Man page Source code |
| plotly_settings | Man page Source code |
| prep_armor_meta | Man page |
| prep_plot_genes_in_pseudotime | Man page Source code |
| prep_scvelo | Man page Source code |
| prep_slider_values | Man page Source code |
| process_monocle_child | Man page Source code |
| propagate_spreadsheet_changes | Man page Source code |
| read_project_db | Man page |
| record_experiment_data | Man page Source code |
| reference_integrate | Man page Source code |
| reformatMetadataDR | Man page Source code |
| reformatMetadataDRui | Man page Source code |
| regress_by_features | Man page Source code |
| reintegrate_seu | Man page Source code |
| rename_from_x_notation | Man page Source code |
| rename_seurat | Man page Source code |
| reorg_seurat_files | Man page Source code |
| reset_seu_meta | Man page Source code |
| run_BEAM | Man page Source code |
| run_census | Man page Source code |
| run_enrichmentbrowser | Man page Source code |
| run_hmap | Man page Source code |
| run_scvelo | Man page Source code |
| run_seurat_de | Man page Source code |
| save_seurat | Man page Source code |
| sce_from_tibbles | Man page Source code |
| scvelo_expression | Source code |
| set_colnames_txi | Man page Source code |
| seu_calcn | Man page Source code |
| seu_complex_heatmap | Man page Source code |
| seu_from_tibbles | Man page Source code |
| seu_from_tximport | Man page Source code |
| seuratApp | Man page Source code |
| seuratToolsBox | Man page Source code |
| seurat_cluster | Man page Source code |
| seurat_find_markers | Man page Source code |
| seurat_integrate | Man page Source code |
| seurat_integration_pipeline | Man page Source code |
| seurat_pipeline | Man page Source code |
| seurat_preprocess | Man page Source code |
| seurat_reduce_dimensions | Man page Source code |
| seurat_v5_integrate | Man page Source code |
| seurat_v5_integration_pipeline | Man page Source code |
| stash_marker_features | Man page |
| subset_by_meta | Man page Source code |
| swap_counts_from_feature | Man page |
| tableSelected | Man page Source code |
| tableSelectedui | Man page Source code |
| techInfo | Man page |
| techInfoui | Man page |
| threshold_monocle_genes | Man page |
| transcripts_to_genes | Man page Source code |
| unite_metadata | Man page Source code |
| update_exp_meta | Man page Source code |
| update_human_gene_symbols | Man page Source code |
| update_project_db | Man page Source code |
| update_seu_meta | Man page Source code |
| update_seuratTools_object | Man page Source code |
| velocyto_assay | Man page Source code |
| velocyto_seu | Man page Source code |
| velocyto_seurat_from_loom | Man page Source code |
