Files in InsightRX/PKPDsim

Tools for Performing Pharmacokinetic-Pharmacodynamic Simulations

.Rbuildignore

.github/.gitignore

.github/workflows/R-CMD-check.yaml

.github/workflows/pkgdown.yaml

.gitignore

DESCRIPTION

Dockerfile

LICENSE

NAMESPACE

NEWS.md

PKPDsim.Rproj

R/.DS_Store

R/PKPDsim-package.R R/RcppExports.R R/add_ruv.R R/add_ruv_to_quantile.R R/adherence.R R/advan.R R/advan_create_data.R R/advan_parse_output.R R/advan_process_infusion_doses.R R/analytical_eqn_wrapper.R R/apply_duration_scale.R R/apply_lagtime.R R/calc_auc_analytic.R R/calc_ss_analytic.R R/calculate_parameters.R R/check_iov_specification.R R/check_mixture_model.R R/compile_sim_cpp.R R/covariate_last_obs_only.R R/covariates_table_to_list.R R/create_event_table.R R/create_obs_data.R R/cv_to_omega.R R/define_tdm_init_model.R R/detect_ode_syntax.R R/get_fixed_parameters.R R/get_ode_model_size.R R/get_parameters_from_code.R R/get_t_obs_from_regimen.R R/get_var_y.R R/ifelse0.R R/is_newer_package.R R/is_positive_definite.R R/join_cov_and_par.R R/join_regimen.R R/merge_regimen.R R/misc.R R/model_from_api.R R/model_library.R R/mvrnorm2.R R/na_locf.R R/new_covariate.R R/new_covariate_model.R R/new_ode_model.R R/new_regimen.R R/nlmixr_parse_parameters.R R/nm_to_regimen.R R/object_to_R_code.R R/parse_obs_types.R R/pkdata.R R/pkpdsim_to_nlmixr.R R/pop_regimen.R R/print.PKPDsim.R R/print.covariate.R R/print.regimen.R R/read_model_json.R R/regimen_to_nm.R R/reparametrize.R R/shift_regimen.R R/shift_state_indices.R R/sim.R R/sim_core.R R/sim_ode.R R/sim_ode_shiny.R R/table_to_list.R R/test_model.R R/test_pointer.R R/translate_ode.R R/triangle_to_full.R R/zzz.R README.md

_pkgdown.yml

cran-comments.md

data/pkdata.RData

exec/model_library.R

inst/cpp/sim.cpp

inst/cpp/sim_header.cpp

inst/models/pk_busulfan_mccune.json5

inst/models/pk_busulfan_shukla.json5

inst/models/pk_vanco_anderson.json5

inst/models/pk_vanco_capparelli.json5

inst/models/pk_vanco_colin.json5

inst/models/pk_vanco_dao.json5

inst/models/pk_vanco_frymoyer.json5

inst/models/pk_vanco_germovsek.json5

inst/models/pk_vanco_jacqzaigrain.json5

inst/models/pk_vanco_kloprogge.json5

inst/models/pk_vanco_le.json5

inst/models/pk_vanco_thomson.json5

inst/models/pk_voriconazole_friberg.json5

inst/models/pkpd_neutropenia_template1.json5

inst/models/pkpd_neutropenia_template2.json5

inst/template/DESCRIPTION

inst/template/NAMESPACE

inst/template/R/fixed.R inst/template/R/get_custom_parameters.R inst/template/R/iiv.R inst/template/R/iov.R inst/template/R/model.R inst/template/R/omega_matrix.R inst/template/R/parameters.R inst/template/R/print.PKPDsim.R inst/template/R/ruv.R inst/template/R/unload.R inst/template/compileAttr.R

inst/template/man/modulename-package.Rd

inst/template/src/PLACEHOLDER

inst/template/tests/PLACEHOLDER

man/OneCompIVbolus.Rd man/OneCompIVinfusion.Rd man/OneCompOral.Rd man/PKPDsim-package.Rd man/ThreeCompIVbolus.Rd man/ThreeCompIVinfusion.Rd man/ThreeCompIVinfusionMetab.Rd man/ThreeCompOral.Rd man/ThreeCompOralMetab.Rd man/TwoCompIVbolus.Rd man/TwoCompIVinfusion.Rd man/TwoCompOral.Rd man/add_quotes.Rd man/add_ruv.Rd man/add_ruv_to_quantile.Rd man/adherence_binomial.Rd man/adherence_markov.Rd man/advan.Rd man/advan_create_data.Rd man/advan_parse_output.Rd man/advan_process_infusion_doses.Rd man/analytical_eqn_wrapper.Rd man/apply_duration_scale.Rd man/apply_lagtime.Rd man/bioavailability_to_R_code.Rd man/calc_auc_analytic.Rd man/calc_dydP.Rd man/calc_ss_analytic.Rd man/calculate_parameters.Rd man/check_iov_specification.Rd man/check_mixture_model.Rd man/check_obs_input.Rd man/compile_sim_cpp.Rd man/covariate_last_obs_only.Rd man/covariates_table_to_list.Rd man/create_event_table.Rd man/create_obs_data.Rd man/cv_to_omega.Rd man/define_tdm_init_model.Rd man/detect_ode_syntax.Rd man/f_cov.Rd

man/figures/hexsticker.png

man/figures/insightrx_logo_color.png

man/get_fixed_parameters.Rd man/get_ode_model_size.Rd man/get_parameters_from_code.Rd man/get_t_obs_from_regimen.Rd man/get_var_y.Rd man/ifelse0.Rd man/is_newer_package.Rd man/is_positive_definite.Rd man/join_cov_and_par.Rd man/join_regimen.Rd man/lower_triangle_mat_size.Rd man/merge_regimen.Rd man/model_from_api.Rd man/model_library.Rd man/mvrnorm2.Rd man/na_locf.Rd man/new_adherence.Rd man/new_covariate.Rd man/new_covariate_model.Rd man/new_ode_model.Rd man/new_regimen.Rd man/nlmixr_parse_parameters.Rd man/nm_to_regimen.Rd man/now_utc.Rd man/parse_obs_types.Rd man/pkdata.Rd man/pkpdsim_to_nlmixr.Rd man/pop_regimen.Rd man/print.PKPDsim.Rd man/print.covariate.Rd man/print.regimen.Rd man/print_list.Rd man/read_model_json.Rd man/regimen_to_nm.Rd man/reparametrize.Rd man/search_replace_in_file.Rd man/shift_regimen.Rd man/shift_state_indices.Rd man/sim.Rd man/sim_core.Rd man/sim_ode.Rd man/sim_ode_shiny.Rd man/table_to_list.Rd man/test_model.Rd man/test_pointer.Rd man/translate_ode.Rd man/triangle_to_full.Rd man/vector_to_R_code.Rd

slack_notification.sh

src/Makevars

src/RcppExports.cpp

src/pk_1cmt_iv_bolus.cpp

src/pk_1cmt_iv_bolus_covariates.cpp

src/pk_1cmt_iv_infusion.cpp

src/pk_1cmt_oral.cpp

src/pk_2cmt_iv_bolus.cpp

src/pk_2cmt_iv_infusion.cpp

src/pk_2cmt_oral.cpp

src/pk_3cmt_iv_bolus.cpp

src/pk_3cmt_iv_infusion.cpp

src/pk_3cmt_oral.cpp

tests/testthat.R

tests/testthat/sample_json/test_1cmt_iv.json5

tests/testthat/setup.R tests/testthat/test_add_ruv_to_quantile.R tests/testthat/test_adherence.R tests/testthat/test_advan.R tests/testthat/test_advan_with_auc.R tests/testthat/test_advan_with_covariates.R tests/testthat/test_apply_duration_scale.R tests/testthat/test_apply_lagtime.R tests/testthat/test_bioav_def.R tests/testthat/test_calc_auc_analytic.R tests/testthat/test_calc_dydP.R tests/testthat/test_calc_parameters.R tests/testthat/test_calc_ss_analytic.R tests/testthat/test_check_iov_specification.R tests/testthat/test_cmt_mapping.R tests/testthat/test_compare_results.R tests/testthat/test_covariate_table_to_list.R tests/testthat/test_create_event_table.R tests/testthat/test_create_obs_data.R tests/testthat/test_define_tdm_init_model.R tests/testthat/test_get_fixed_parameters.R tests/testthat/test_get_t_obs_from_regimen.R tests/testthat/test_get_var_y.R tests/testthat/test_iov.R tests/testthat/test_is_newer_package.R tests/testthat/test_is_positive_definite.R tests/testthat/test_join_regimen.R tests/testthat/test_merge_regimen.R tests/testthat/test_misc.R tests/testthat/test_mixture_model.R tests/testthat/test_model_from_api.R tests/testthat/test_multi_obs.R tests/testthat/test_multiple_regimens.R tests/testthat/test_na_locf.R tests/testthat/test_new_covariate.R tests/testthat/test_new_ode_model.R tests/testthat/test_new_regimen.R tests/testthat/test_nlmixr_translation.R tests/testthat/test_nm_to_regimen.R tests/testthat/test_object_to_R_code.R tests/testthat/test_overlapping_doses.R tests/testthat/test_parameters_table.R tests/testthat/test_parse_obs_types.R tests/testthat/test_pkpd_combined.R tests/testthat/test_pop_regimen.R tests/testthat/test_read_model_json.R tests/testthat/test_regimen_to_nm.R tests/testthat/test_reparametrization.R tests/testthat/test_shift_regimen.R tests/testthat/test_sim.R tests/testthat/test_sim_core.R tests/testthat/test_sim_lagtime.R tests/testthat/test_t_init.R tests/testthat/test_test_model.R tests/testthat/test_time_rounding_bug.R tests/testthat/test_timevar_cov.R

vignettes/.gitignore

vignettes/PKPDsim.Rmd vignettes/covariates.Rmd vignettes/error.Rmd vignettes/estimation-nlmixr.Rmd vignettes/example-absorption-models.Rmd vignettes/example-pkpd-model.Rmd vignettes/export-model.Rmd vignettes/model.Rmd vignettes/output.Rmd vignettes/parameters.Rmd vignettes/regimen.Rmd vignettes/simulation.Rmd vignettes/speed.Rmd vignettes/variability.Rmd

InsightRX/PKPDsim documentation built on April 25, 2024, 2:10 a.m.