Files in john-harrold/ubiquity
PKPD, PBPK, and Systems Pharmacology Modeling Tools

DESCRIPTION
LICENSE
NAMESPACE
R/ubiquity.r README.md
exec/build_system.pl
inst/ubinc/csv/mab_pk_subjects.csv
inst/ubinc/csv/nm_data.csv
inst/ubinc/csv/pk_all_md.csv
inst/ubinc/csv/pk_all_sd.csv
inst/ubinc/csv/pk_sparse_sd.csv
inst/ubinc/csv/pm_data.csv
inst/ubinc/images/report_image.png
inst/ubinc/perl/build_system.pl
inst/ubinc/scripts/analysis_multiple.r inst/ubinc/scripts/analysis_multiple_file.r inst/ubinc/scripts/analysis_nca_md.R inst/ubinc/scripts/analysis_nca_sd.R inst/ubinc/scripts/analysis_nca_sparse.R inst/ubinc/scripts/analysis_parent.r inst/ubinc/scripts/analysis_parent_metabolite.r inst/ubinc/scripts/analysis_parent_metabolite_global.r inst/ubinc/scripts/analysis_parent_metabolite_nm_data.r inst/ubinc/scripts/analysis_repeat_dosing.r inst/ubinc/scripts/analysis_repeat_infusion.r inst/ubinc/scripts/analysis_single.r inst/ubinc/scripts/analysis_state_reset.r inst/ubinc/scripts/analysis_visit_dosing_titration.r inst/ubinc/scripts/analysis_visit_dosing_titration_stochastic.r inst/ubinc/scripts/analysis_visit_infusion_dosing.r inst/ubinc/scripts/make_report_PowerPoint.R inst/ubinc/scripts/nca_generate_data.R inst/ubinc/scripts/ubiquity_fcns.R inst/ubinc/scripts/workshop_test.R
inst/ubinc/systems/system-adapt.txt
inst/ubinc/systems/system-glp_study.txt
inst/ubinc/systems/system-iiv.txt
inst/ubinc/systems/system-mab_pk.txt
inst/ubinc/systems/system-one_cmt_macro.txt
inst/ubinc/systems/system-one_cmt_micro.txt
inst/ubinc/systems/system-pbpk.txt
inst/ubinc/systems/system-pwc.txt
inst/ubinc/systems/system-sets.txt
inst/ubinc/systems/system-target.txt
inst/ubinc/systems/system-tmdd.txt
inst/ubinc/systems/system-two_cmt_macro.txt
inst/ubinc/systems/system-two_cmt_micro.txt
inst/ubinc/templates/adapt_parameters.prm
inst/ubinc/templates/adapt_system.for
inst/ubinc/templates/monolix.txt
inst/ubinc/templates/mrgsolve.cpp
inst/ubinc/templates/nonmem.ctl
inst/ubinc/templates/org_functions.R inst/ubinc/templates/r_analysis_estimation.R inst/ubinc/templates/r_components.R inst/ubinc/templates/r_gui_save.R inst/ubinc/templates/r_nca.R
inst/ubinc/templates/r_odes.c
inst/ubinc/templates/r_simulation_driver.R inst/ubinc/templates/r_system_report.Rmd inst/ubinc/templates/r_test_rmd.R
inst/ubinc/templates/report.docx
inst/ubinc/templates/report.pptx
inst/ubinc/templates/system.png
inst/ubinc/templates/system.svg
inst/ubinc/templates/system_report.R
inst/ubinc/templates/system_template.txt
inst/ubinc/templates/ubiquity_app.R inst/ubinc/templates/ubiquity_app_custom.R inst/ubinc/templates/ubiquity_server.R inst/ubinc/templates/ubiquity_server_custom.R inst/ubinc/templates/ubiquity_ui.R inst/ubinc/templates/ubiquity_ui_custom.R man/AUC_Bailers_method.Rd man/GUI_log_entry.Rd man/apply_sub_file_COV.Rd man/archive_estimation.Rd man/build_system.Rd man/calculate_halflife.Rd man/calculate_objective.Rd man/calculate_objective_ga.Rd man/calculate_objective_pso.Rd man/calculate_variance.Rd man/check_steady_state.Rd man/compare_estimate.Rd man/estimate_parameters.Rd man/fetch_full_parameters.Rd man/find_bracketed_arguments.Rd man/generate_parameter.Rd man/generate_report.Rd man/generate_subject.Rd man/gg_axis.Rd man/gg_log10_xaxis.Rd man/gg_log10_yaxis.Rd man/linspace.Rd man/logspace.Rd man/make_forcing_function.Rd man/nm_select_records.Rd man/pad_string.Rd man/parse_patterns.Rd man/prepare_figure.Rd man/run_simulation_titrate.Rd man/run_simulation_ubiquity.Rd man/sample_around.Rd man/simulate_subjects.Rd man/solution_statistics.Rd man/som_to_df.Rd man/system_check_requirements.Rd man/system_check_steady_state.Rd man/system_clear_cohorts.Rd man/system_define_cohort.Rd man/system_define_cohorts_nm.Rd man/system_estimate_parameters.Rd man/system_fetch_TSsys.Rd man/system_fetch_guess.Rd man/system_fetch_iiv.Rd man/system_fetch_parameters.Rd man/system_fetch_template.Rd man/system_glp_init.Rd man/system_glp_save.Rd man/system_glp_scenario.Rd man/system_load_data.Rd man/system_log_entry.Rd man/system_log_init.Rd man/system_nca_run.Rd man/system_new.Rd man/system_new_tt_rule.Rd man/system_nm_check_ds.Rd man/system_od_general.Rd man/system_plot_cohorts.Rd man/system_report_doc_add_content.Rd man/system_report_doc_set_ph.Rd man/system_report_estimation.Rd man/system_report_fetch.Rd man/system_report_glp.Rd man/system_report_init.Rd man/system_report_nca.Rd man/system_report_ph_content.Rd man/system_report_save.Rd man/system_report_set.Rd man/system_report_slide_content.Rd man/system_report_slide_section.Rd man/system_report_slide_title.Rd man/system_report_slide_two_col.Rd man/system_report_view_layout.Rd man/system_req.Rd man/system_select_set.Rd man/system_set_bolus.Rd man/system_set_covariate.Rd man/system_set_guess.Rd man/system_set_iiv.Rd man/system_set_option.Rd man/system_set_parameter.Rd man/system_set_rate.Rd man/system_set_tt_bolus.Rd man/system_set_tt_cond.Rd man/system_set_tt_rate.Rd man/system_simulate_estimation_results.Rd man/system_ts_to_simtime.Rd man/system_view.Rd man/system_zero_inputs.Rd man/tic.Rd man/timecourse_stats.Rd man/toc.Rd man/ubiquity_name_check.Rd man/var2string.Rd man/var2string_gen.Rd man/vp.Rd man/workshop_fetch.Rd tests/testthat.R tests/testthat/test_new_system_templates.R
ubiquity.Rproj
vignettes/Deployment.Rmd
vignettes/Estimation-parent-op.png
vignettes/Estimation-parent-tc.png
vignettes/Estimation.Rmd vignettes/Language.Rmd vignettes/NCA.Rmd
vignettes/NCA_presim.RData
vignettes/Reporting.Rmd
vignettes/ShinyApp-ss-Bolus.png
vignettes/ShinyApp-ss-IIV.png
vignettes/ShinyApp-ss-Infusion.png
vignettes/ShinyApp-ss-Initialization.png
vignettes/ShinyApp-ss-Pop_timecourse.png
vignettes/ShinyApp-ss-Save.png
vignettes/Simulation.Rmd
vignettes/Simulation_som_multiple.RData
vignettes/Simulation_som_single.RData
vignettes/Titration.Rmd
vignettes/Titration_presim.RData
vignettes/covariates.png
vignettes/dosing_bolus.png
vignettes/nca_reporting-md.png
vignettes/nca_reporting-sd.png
vignettes/nca_reporting-sparse.png
vignettes/report_template_layout.png
vignettes/system-estimation_example.png
vignettes/system-paper-mathematical_sets.png
vignettes/system-paper-parameter_sets.png
vignettes/system-tmdd.png
john-harrold/ubiquity documentation built on Nov. 7, 2019, 12:13 p.m.