API for isotracer
Isotopic Tracer Analysis Using MCMC
| Global functions | |
|---|---|
| %>% | Man page |
| .onAttach | Source code |
| .onUnload | Source code |
| Math.mcmc.list | Man page Source code |
| Ops.mcmc.list | Man page Source code |
| Ops.prior | Man page Source code |
| Ops.topology | Man page Source code |
| [.networkModelStanfit | Man page |
| `[.networkModelStanfit` | Source code |
| add_covariates | Man page Source code |
| add_param_mapping | Source code |
| add_pulse_event | Man page Source code |
| aquarium_mod | Man page |
| aquarium_run | Man page |
| as.derived.mcmc.list | Source code |
| as.mcmc.list | Man page |
| as.mcmc.list.tidy_flows | Man page Source code |
| as.mcmc.list.tidy_steady_states | Man page Source code |
| as_tbl_graph | Man page Source code |
| as_tbl_graph.topology | Man page Source code |
| available_priors | Man page Source code |
| bezierCurve | Source code |
| build_transfer_matrix | Source code |
| build_transition_matrix | Source code |
| build_uptake_mask | Source code |
| c.mcmc.list | Man page Source code |
| calc_instantaneous_flow | Source code |
| calculate_steady_state | Man page Source code |
| calculate_steady_state_one_row | Source code |
| capture_msg | Source code |
| compartments_from_links | Source code |
| compatible_groups | Source code |
| comps | Man page Source code |
| constant_p | Man page Source code |
| delta2prop | Man page Source code |
| describe_z_eta | Source code |
| dic | Man page Source code |
| drawTraceOneVar | Source code |
| drawTraceOneVarHist | Source code |
| drawTraces | Source code |
| draw_legend | Source code |
| draw_nm_layer | Source code |
| draw_nm_panel | Source code |
| eelgrass | Man page |
| encode_distrib_families | Source code |
| encode_events | Source code |
| encode_individual_obs | Source code |
| encode_init | Source code |
| encode_intervals | Source code |
| encode_lambdas | Source code |
| encode_obs | Source code |
| encode_priors | Source code |
| encode_pulse_events | Source code |
| encode_split | Source code |
| encode_steady | Source code |
| encode_time_schemes | Source code |
| encode_unique_obs_times | Source code |
| encode_upsilons | Source code |
| exponential_p | Man page Source code |
| filter | Man page |
| filter.ppcNetworkModel | Man page Source code |
| filter_by_group | Man page Source code |
| flows_from_topo | Source code |
| format.prior | Man page Source code |
| format.prior_tibble | Man page Source code |
| gamma_p | Man page Source code |
| gather_flows | Source code |
| get_n_cores | Source code |
| ggflows | Man page Source code |
| ggtopo | Man page Source code |
| ggtopo.networkModel | Man page Source code |
| ggtopo.topology | Man page Source code |
| grid_get_asp | Source code |
| group2string | Source code |
| groups | Man page |
| groups.networkModel | Man page Source code |
| hcauchy_p | Man page Source code |
| insert_in_between | Source code |
| is_dag | Source code |
| isotracer | Man page |
| isotracer-package | Man page |
| lalaja | Man page |
| li2017 | Man page |
| li2017_counts | Man page |
| li2017_prots | Man page |
| make_and_push_ortho_vp | Source code |
| make_init | Source code |
| make_obs | Source code |
| make_topology | Source code |
| matrix_exp_stan | Source code |
| mcmc_heatmap | Man page Source code |
| merge_nm_by_group | Source code |
| missing_priors | Man page Source code |
| mugen_stan | Source code |
| n2mfrowByRatio | Source code |
| new_networkModel | Man page Source code |
| nm_base_params | Source code |
| nm_get_groups | Source code |
| nm_get_lambdas | Source code |
| nm_get_time_schemes | Source code |
| nm_get_upsilons | Source code |
| nm_is_grouped | Source code |
| nm_row_get_events | Source code |
| nm_row_get_lambdas | Source code |
| nm_row_get_obs | Source code |
| nm_row_get_time_scheme | Source code |
| nm_row_get_timeline | Source code |
| nm_row_get_upsilons | Source code |
| nodes_from_topo | Source code |
| normal_p | Man page Source code |
| not_implemented_for_topology_with_loop | Source code |
| obj_sum.prior | Man page Source code |
| params | Man page Source code |
| parse_link_string | Source code |
| pillar_shaft.prior | Man page Source code |
| plot.derived.mcmc.list | Source code |
| plot.networkModel | Man page Source code |
| plot.networkModelStanfit | Source code |
| plot.ready_for_unit_plot | Man page Source code |
| plot.tidy_flows_mcmc.list | Source code |
| plot_nm | Source code |
| plot_nm_row_timeline | Source code |
| plot_traces | Source code |
| posterior_predict | Man page Source code |
| posterior_predict.networkModelStanfit | Man page Source code |
| potential_steady_state | Source code |
| predict.networkModel | Man page Source code |
| prep_stan_data_euler | Source code |
| prep_stan_data_expm | Source code |
| prettyLog | Source code |
| prettyLogLabels | Source code |
| print.networkModel | Man page Source code |
| print.prior | Man page Source code |
| print.prior_tibble | Man page Source code |
| print.topology | Man page Source code |
| priors | Man page Source code |
| project | Man page Source code |
| project_row | Source code |
| prop_family | Man page Source code |
| quick_sankey | Man page Source code |
| reexports | Man page |
| refresh_param_mapping | Source code |
| release_questions | Source code |
| ribbonFromTrajectory | Source code |
| run_mcmc | Man page Source code |
| sample_from | Man page Source code |
| sample_from_prior | Man page Source code |
| sample_params | Man page Source code |
| sankey | Man page Source code |
| sankey_adjust_edge_sockets | Source code |
| sankey_adjust_node_locations | Source code |
| sankey_calc_edge_socket_coordinates | Source code |
| sankey_calc_node_shape | Source code |
| sankey_calc_nodes_locations | Source code |
| sankey_calc_nodes_locations_inhouse | Source code |
| sankey_draw_edge | Source code |
| sankey_draw_edges | Source code |
| sankey_draw_labels | Source code |
| sankey_draw_node | Source code |
| sankey_draw_nodes | Source code |
| sankey_get_elements_lims | Source code |
| sankey_get_layout | Source code |
| sankey_minimize_energy | Source code |
| sankey_minimize_energy_sim | Source code |
| sankey_place_edge_backbones | Source code |
| sankey_place_edge_sockets_on_nodes | Source code |
| sankey_place_labels | Source code |
| sankey_place_nodes | Source code |
| sankey_stress_quadrant | Source code |
| sankey_stress_socket_imbalance | Source code |
| sankey_stress_socket_moves | Source code |
| scaled_beta_p | Man page Source code |
| select | Man page |
| select.mcmc.list | Man page Source code |
| set_half_life | Man page Source code |
| set_init | Man page Source code |
| set_obs | Man page Source code |
| set_params | Man page Source code |
| set_prior | Man page Source code |
| set_priors | Man page |
| set_prop_family | Man page Source code |
| set_size_family | Man page Source code |
| set_split | Man page Source code |
| set_steady | Man page Source code |
| set_topo | Man page Source code |
| size_family | Man page Source code |
| split_to_unit_plot | Source code |
| stanfit_to_named_mcmclist | Man page Source code |
| tidy_data | Man page Source code |
| tidy_dpp | Man page Source code |
| tidy_flows | Man page Source code |
| tidy_mcmc | Man page Source code |
| tidy_mcmc_list | Source code |
| tidy_posterior_predict | Man page Source code |
| tidy_steady_states | Man page Source code |
| tidy_trajectories | Man page Source code |
| timepoints_to_dt | Source code |
| topo | Man page Source code |
| topo_count_crossings | Source code |
| topo_get_lambda_names | Source code |
| topo_get_portionAct_names | Source code |
| topo_get_upsilon_names | Source code |
| topo_has_loop | Source code |
| topo_x_ordering | Source code |
| topo_y_ordering | Source code |
| traceplot | Man page Source code |
| trini_mod | Man page |
| type_sum.prior | Man page Source code |
| uniform_p | Man page Source code |
| valid_prior_tbl | Source code |
| varnameToExp | Source code |
| varnames | Man page |
