API for dyngen
A Multi-Modal Simulator for Spearheading Single-Cell Omics Analyses
| Global functions | |
|---|---|
| %>% | Man page |
| .add_timing | Source code |
| .download_cacheable_file | Source code |
| .feature_network_fetch_realnet | Source code |
| .feature_network_sample_downstream | Source code |
| .generate_cells_precompile_reactions | Source code |
| .generate_experiment_fetch_realcount | Source code |
| .generate_experiment_sample_cells | Source code |
| .generate_experiment_snapshot | Source code |
| .generate_experiment_synchronised | Source code |
| .generate_gold_standard_mod_changes | Source code |
| .generate_partitions | Source code |
| .generate_tf_info | Source code |
| .generate_tf_network | Source code |
| .kinetics_add_columns | Source code |
| .kinetics_calculate_basal | Source code |
| .kinetics_calculate_dissociation | Source code |
| .kinetics_default_genes_sampler | Source code |
| .kinetics_default_interactions_sampler | Source code |
| .kinetics_extract_parameters | Source code |
| .kinetics_extract_parameters_as_df | Source code |
| .kinetics_generate_formulae | Source code |
| .kinetics_generate_gene_kinetics | Source code |
| .sample_decent_realcount | Source code |
| .simulate_counts_from_realcounts | Source code |
| as_anndata | Man page Source code |
| as_dyno | Man page Source code |
| as_list | Man page Source code |
| as_sce | Man page Source code |
| as_seurat | Man page Source code |
| backbone | Man page Source code |
| backbone_bifurcating | Man page Source code |
| backbone_bifurcating_converging | Man page Source code |
| backbone_bifurcating_cycle | Man page Source code |
| backbone_bifurcating_loop | Man page Source code |
| backbone_binary_tree | Man page Source code |
| backbone_branching | Man page Source code |
| backbone_consecutive_bifurcating | Man page Source code |
| backbone_converging | Man page Source code |
| backbone_cycle | Man page Source code |
| backbone_cycle_simple | Man page Source code |
| backbone_disconnected | Man page Source code |
| backbone_linear | Man page Source code |
| backbone_linear_simple | Man page Source code |
| backbone_trifurcating | Man page Source code |
| bblego | Man page Source code |
| bblego_branching | Man page |
| bblego_end | Man page |
| bblego_linear | Man page Source code |
| bblego_start | Man page |
| calculate_dimred | Source code |
| colour_brighten | Source code |
| combine_models | Man page Source code |
| dyngen | Man page |
| effect_colour | Source code |
| example_model | Man page |
| experiment_snapshot | Man page Source code |
| experiment_synchronised | Man page Source code |
| feature_network_default | Man page Source code |
| generate_cells | Man page Source code |
| generate_dataset | Man page Source code |
| generate_experiment | Man page Source code |
| generate_feature_network | Man page Source code |
| generate_gold_standard | Man page Source code |
| generate_kinetics | Man page Source code |
| generate_tf_network | Man page Source code |
| geom_edge_fan_workaround | Source code |
| geom_edge_loop_workaround | Source code |
| get_timings | Man page Source code |
| gold_standard_default | Man page Source code |
| initialise_model | Man page Source code |
| kinetics_default | Man page Source code |
| kinetics_noise_none | Man page Source code |
| kinetics_noise_simple | Man page Source code |
| kinetics_random_distributions | Man page Source code |
| list_backbones | Man page Source code |
| list_experiment_samplers | Man page Source code |
| modnet_chain | Source code |
| modnet_edge | Source code |
| modnet_pairwise | Source code |
| modnet_self | Source code |
| ode_em | Man page |
| plot_backbone_modulenet | Man page Source code |
| plot_backbone_statenet | Man page Source code |
| plot_experiment_dimred | Man page Source code |
| plot_feature_network | Man page Source code |
| plot_gold_expression | Man page Source code |
| plot_gold_mappings | Man page Source code |
| plot_gold_simulations | Man page Source code |
| plot_simulation_expression | Man page Source code |
| plot_simulations | Man page Source code |
| plot_summary | Man page Source code |
| plot_timings | Source code |
| realcounts | Man page |
| realnets | Man page |
| reexports | Man page |
| rnorm_bounded | Man page Source code |
| runif_subrange | Man page Source code |
| simtime_from_backbone | Man page Source code |
| simulation_default | Man page Source code |
| simulation_type_knockdown | Man page |
| simulation_type_wild_type | Man page |
| ssa_etl | Man page |
| ssa_exact | Man page |
| tf_network_default | Man page Source code |
| wrap_dataset | Man page Source code |
