A Pharmacometrics Data Transformation and Analysis Tool

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Documentation for package ‘ruminate’ version 0.3.1

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

ruminate-package	ruminate: Shiny app and module to facilitate pharamacometrics analysis
apply_route_map	Applies Route Mapping to Dataset
CTS_add_covariate	Add Covariate to Elemetnt
CTS_add_rule	Add Rule to Element
CTS_append_report	Append Report Elements
CTS_change_source_model	Change the Source Model
CTS_del_current_element	Deletes Current cohort
CTS_fetch_code	Fetch Module Code
CTS_fetch_current_element	Fetches Current cohort
CTS_fetch_ds	Fetch Clinical Trial Simulator Module Datasets
CTS_fetch_sc_meta	Fetches Simulation Parameter Meta Information
CTS_fetch_state	Fetch Clinical Trial Simulator State
CTS_init_element_model	Initializes Cohort When Model Changes
CTS_init_state	Initialize CTS Module State
CTS_mk_preload	Make List of Current CTS State
CTS_new_element	New Clinical Trial Simulation Cohort
CTS_plot_element	Plots the Specified Element
CTS_preload	Preload Data for CTS Module
CTS_Server	Clinical Trial Simulator State Server
CTS_set_current_element	Sets the Value for the Current cohort
CTS_simulate_element	Simulates the Specified Element
CTS_sim_isgood	Checks Simulation in Element for Goodness
CTS_test_mksession	Populate Session Data for Module Testing
CTS_update_checksum	Updates CTS Module Checksum
dose_records_builder	Builds Dose Records Dataframe
fetch_rxinfo	Fetches Information from an rxode2 Object
fetch_rxtc	Extracts Timecourse and Merges Covariates
MB_append_report	Append Report Elements
MB_build_code	Build Code to Generate Model
MB_del_current_element	Deletes Current model
MB_fetch_appends	Fetches List of Available Models
MB_fetch_catalog	Fetches List of Available Models
MB_fetch_code	Fetch Module Code
MB_fetch_component	Fetch Selected Current Model Component
MB_fetch_current_element	Fetches Current model
MB_fetch_mdl	Fetch Model Builder Module Models
MB_fetch_state	Fetch Model Builder State
MB_init_state	Initialize MB Module State
MB_mk_preload	Make List of Current MB State
MB_new_element	New Model Building Model
MB_preload	Preload Data for MB Module
MB_Server	Model Builder State Server
MB_set_current_element	Sets the Value for the Current model
MB_test_catalog	Tests the Model Catalog
MB_test_mksession	Populate Session Data for Module Testing
MB_update_checksum	Update MB Module Checksum
MB_update_model	Updates Current Element with rxode2 Model
mk_figure_ind_obs	Creates Figures of Individual Observations from PKNCA Result
mk_rx_obj	Makes an rxode2 Object
mk_subjects	Fetches Information from an rxode2 Object
mk_table_ind_obs	Creates Tables of Individual Observations from PKNCA Result
mk_table_nca_params	Create Tabular Output from PKNCA Results
NCA_add_int	Adds Analysis Interval to Current Analysis
NCA_append_report	Append Report Elements
nca_builder	Builds NCA Code from ui Elements
NCA_fetch_ana_ds	Fetch Analysis Dataset
NCA_fetch_ana_pknca	Fetch PKNCA Results Object
NCA_fetch_code	Fetch Module Code
NCA_fetch_current_ana	Fetches Current Analysis
NCA_fetch_current_obj	Fetches the Current Analysis Object
NCA_fetch_data_format	Fetches Details About Data Requirements
NCA_fetch_ds	Fetch Module Datasets
NCA_fetch_np_meta	Fetches NCA Parameter Meta Information
NCA_fetch_PKNCA_meta	Fetches PKNCA Metadata
NCA_fetch_state	Fetch ruminate State
NCA_find_col	Determines Default Column Name
NCA_init_state	Initialize NCA Module State
NCA_load_scenario	Loads Pre-Defined Scenario
NCA_mkactive_ana	Fetch PKNCA Results Object
NCA_mk_preload	Make List of Current NCA State
NCA_new_ana	Initialize New Analysis
NCA_preload	Preload Data for NCA Module
NCA_process_current_ana	Processes Current Analysis to be Run
NCA_Server	Fetch Non-Compartmental Analysis State
NCA_set_current_ana	Sets Current Analysis
NCA_test_mksession	Populate Session Data for Module Testing
plot_sr_ev	Plots Timecourse of Rules Simulations
plot_sr_tc	Plots Timecourse of Rules Simulations
ruminate	ruminate: Shiny app and module to facilitate pharamacometrics analysis
ruminate_check	Checks 'ruminate' Dependencies
run_nca_components	Runs NCA for the Current Analysis
rx2other	Converts an rxode2 Object Into Specified Model Format
simulate_rules	Rule-Based simulates