Package: ubiquity 2.0.4
ubiquity: PKPD, PBPK, and Systems Pharmacology Modeling Tools
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'.
Authors:
ubiquity_2.0.4.tar.gz
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ubiquity_2.0.4.tgz(r-4.4-any)ubiquity_2.0.4.tgz(r-4.3-any)
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ubiquity.pdf |ubiquity.html✨
ubiquity/json (API)
NEWS
# Install 'ubiquity' in R: |
install.packages('ubiquity', repos = c('https://john-harrold.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/john-harrold/ubiquity/issues
Last updated 11 days agofrom:547d3accd6. Checks:OK: 1 NOTE: 6. Indexed: yes.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Oct 26 2024 |
R-4.5-win | NOTE | Oct 26 2024 |
R-4.5-linux | NOTE | Oct 26 2024 |
R-4.4-win | NOTE | Oct 26 2024 |
R-4.4-mac | NOTE | Oct 26 2024 |
R-4.3-win | NOTE | Oct 26 2024 |
R-4.3-mac | NOTE | Oct 26 2024 |
Exports:apply_sub_file_COVbuild_systemcalculate_halflifecalculate_objectivefetch_full_parametersfind_bracketed_argumentsgenerate_parametergenerate_subjectgg_axisgg_log10_xaxisgg_log10_yaxisGUI_log_entrylinspacelogspacenm_select_recordspad_stringparse_patternsprepare_figurerun_simulation_titraterun_simulation_ubiquitysimulate_subjectssom_to_dfsystem_check_requirementssystem_check_steady_statesystem_clear_cohortssystem_define_cohortsystem_define_cohorts_nmsystem_estimate_parameterssystem_fetch_guesssystem_fetch_iivsystem_fetch_ncasystem_fetch_nca_columnssystem_fetch_parameterssystem_fetch_rpt_officer_objectsystem_fetch_rpt_onbrand_objectsystem_fetch_setsystem_fetch_templatesystem_fetch_TSsyssystem_glp_initsystem_glp_scenariosystem_load_datasystem_log_debug_savesystem_log_entrysystem_log_initsystem_nca_parameters_metasystem_nca_runsystem_nca_summarysystem_newsystem_new_listsystem_new_tt_rulesystem_od_generalsystem_plot_cohortssystem_rpt_add_doc_contentsystem_rpt_add_slidesystem_rpt_estimationsystem_rpt_ncasystem_rpt_read_templatesystem_rpt_save_reportsystem_rpt_template_detailssystem_select_setsystem_set_bolussystem_set_covariatesystem_set_guesssystem_set_iivsystem_set_optionsystem_set_parametersystem_set_ratesystem_set_rpt_officer_objectsystem_set_rpt_onbrand_objectsystem_set_tt_bolussystem_set_tt_condsystem_set_tt_ratesystem_simulate_estimation_resultssystem_ts_to_simtimesystem_viewsystem_zero_inputstictimecourse_statstocvar2stringvar2string_genvpworkshop_fetch
Dependencies:askpassbackportsbase64encbslibcachemcellrangercheckmateclicodetoolscolorspacecommonmarkcpp11crayondata.tabledeSolvedigestdoParalleldplyrevaluatefansifarverfastmapflextablefontawesomefontBitstreamVerafontLiberationfontquiverforeachfsgdtoolsgenericsggplot2gluegtablehighrhmshtmltoolshtmlwidgetshttpuvisobanditeratorsjquerylibjsonliteknitrlabelinglaterlatticelifecyclemagrittrMASSMatrixmemoisemgcvmimemunsellnlmenloptrnumDerivofficeronbrandopenssloptimxpillarpkgconfigPKNCApracmaprettyunitsprogresspromisespsopurrrR6raggrappdirsRColorBrewerRcppreadxlrematchrhandsontablerlangrmarkdownsassscalesshinysourcetoolsstringistringrsyssystemfontstextshapingtibbletidyrtidyselecttinytexutf8uuidvctrsviridisLitewithrxfunxml2xtableyamlzip
Model Deployment
Rendered fromDeployment.Rmd
usingknitr::rmarkdown
on Oct 26 2024.Last update: 2021-12-05
Started: 2018-04-27
Naive-Pooled Parameter Estimation
Rendered fromEstimation.Rmd
usingknitr::rmarkdown
on Oct 26 2024.Last update: 2024-10-23
Started: 2018-03-04
Analysis of Static Systems, an In Vitro Example
Rendered fromIn_Vitro.Rmd
usingknitr::rmarkdown
on Oct 26 2024.Last update: 2024-10-24
Started: 2024-10-20
Modeling Language
Rendered fromLanguage.Rmd
usingknitr::rmarkdown
on Oct 26 2024.Last update: 2024-10-26
Started: 2018-03-04
Noncompartmental Analysis
Rendered fromNCA.Rmd
usingknitr::rmarkdown
on Oct 26 2024.Last update: 2024-10-20
Started: 2019-07-08
Report Generation
Rendered fromReporting.Rmd
usingknitr::rmarkdown
on Oct 26 2024.Last update: 2024-03-07
Started: 2018-03-04
Individual and Population Simulations
Rendered fromSimulation.Rmd
usingknitr::rmarkdown
on Oct 26 2024.Last update: 2024-08-03
Started: 2018-03-04
Titration/Rule-Based Simulations
Rendered fromTitration.Rmd
usingknitr::rmarkdown
on Oct 26 2024.Last update: 2021-12-05
Started: 2018-03-04