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ubiquity  

PKPD, PBPK, and Systems Pharmacology Modeling Tools
View on CRAN: Click here


Download and install ubiquity package within the R console
Install from CRAN:
install.packages("ubiquity")

Install from Github:
library("remotes")
install_github("cran/ubiquity")

Install by package version:
library("remotes")
install_version("ubiquity", "2.1.0")



Attach the package and use:
library("ubiquity")
Maintained by
John Harrold
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2019-10-17
Latest Update: 2025-01-07
Description:
Complete work flow for the analysis of pharmacokinetic pharmacodynamic (PKPD), physiologically-based pharmacokinetic (PBPK) and systems pharmacology models including: creation of ordinary differential equation-based models, pooled parameter estimation, individual/population based simulations, rule-based simulations for clinical trial design and modeling assays, deployment with a customizable 'Shiny' app, and non-compartmental analysis. System-specific analysis templates can be generated and each element includes integrated reporting with 'PowerPoint' and 'Word'.
How to cite:
John Harrold (2019). ubiquity: PKPD, PBPK, and Systems Pharmacology Modeling Tools. R package version 2.1.0, https://cran.r-project.org/web/packages/ubiquity. Accessed 05 Aug. 2026.
Previous versions and publish date:
(2026-07-09 06:57), 1.0.0 (2019-10-17 10:10), 1.0.1 (2020-01-21 08:50), 1.0.2 (2020-07-05 17:00), 1.0.3 (2020-09-13 18:40), 1.0.4 (2021-04-18 06:30), 1.0.5 (2021-04-25 20:50), 2.0.0 (2021-09-03 06:40), 2.0.1 (2023-10-29 21:50), 2.0.3 (2024-03-08 10:10)
Other packages that cited ubiquity R package
View ubiquity citation profile
Other R packages that ubiquity depends, imports, suggests or enhances
Complete documentation for ubiquity
Functions, R codes and Examples using the ubiquity R package
Some associated functions: AUC_Bailers_method . GUI_log_entry . apply_sub_file_COV . archive_estimation . build_system . calculate_halflife . calculate_objective . calculate_objective_ga . calculate_objective_pso . calculate_variance . check_steady_state . compare_estimate . estimate_parameters . fetch_full_parameters . find_bracketed_arguments . generate_parameter . generate_report . generate_subject . gg_axis . gg_log10_xaxis . gg_log10_yaxis . linspace . logspace . make_forcing_function . nm_select_records . pad_string . parse_patterns . prepare_figure . run_simulation_titrate . run_simulation_ubiquity . sample_around . simulate_subjects . solution_statistics . som_to_df . system_check_requirements . system_check_steady_state . system_clear_cohorts . system_define_cohort . system_define_cohorts_nm . system_estimate_parameters . system_fetch_TSsys . system_fetch_guess . system_fetch_iiv . system_fetch_nca . system_fetch_nca_columns . system_fetch_parameters . system_fetch_rpt_officer_object . system_fetch_rpt_onbrand_object . system_fetch_set . system_fetch_template . system_glp_init . system_glp_scenario . system_load_data . system_log_debug_save . system_log_entry . system_log_init . system_nca_parameters_meta . system_nca_run . system_nca_summary . system_new . system_new_list . system_new_tt_rule . system_nm_check_ds . system_od_general . system_plot_cohorts . system_req . system_rpt_add_doc_content . system_rpt_add_slide . system_rpt_estimation . system_rpt_nca . system_rpt_read_template . system_rpt_save_report . system_rpt_template_details . system_select_set . system_set_bolus . system_set_covariate . system_set_guess . system_set_iiv . system_set_option . system_set_parameter . system_set_rate . system_set_rpt_officer_object . system_set_rpt_onbrand_object . system_set_tt_bolus . system_set_tt_cond . system_set_tt_rate . system_simulate_estimation_results . system_ts_to_simtime . system_view . system_zero_inputs . tic . timecourse_stats . toc . ubiquity_name_check . var2string . var2string_gen . vp . workshop_fetch . 
Some associated R codes: Full ubiquity package functions and examples
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