Files in metrumresearchgroup/bbr

R package for bbi

LICENSE.md NEWS.md R/aaa.R R/bbr.R R/bootstrap-model.R R/check-up-to-date.R R/class-register.R R/classes.R R/collapse-to-string.R R/compat.R R/config-log.R R/copy-model-from.R R/copy-model-helpers.R R/cov-cor.R R/filter-nm-data.R R/get-based-on.R R/get-param.R R/get-path-from-object.R R/helpers-for-tests.R R/inherit-param-estimates.R R/initial-estimates.R R/model-diff.R R/model-status.R R/model-summaries.R R/model-summary.R R/model-tree.R R/modify-model-field.R R/modify-records.R R/new-model.R R/nm-file.R R/nm-join.R R/nm-tables.R R/open.R R/param-estimates-batch.R R/param-estimates.R R/param-labels.R R/print.R R/read-bbi-path.R R/read-output.R R/run-log.R R/run-nmtran.R R/submit-model-batch.R R/submit-model.R R/submit-models.R R/summary-log.R R/tags-diff.R R/test-threads.R R/tweak-initial-estimates.R R/use-bbi.R R/utils-pipe.R R/utils.R R/vpc-simulation.R R/zzz.R README.Rmd README.md data-raw/aa-refresh-all-refs.R data-raw/build-model-summary-refs.R data-raw/build-print-refs.R data-raw/build-read-output-refs.R data-raw/run-test-model.R inst/test-refs/1_param_table.R inst/test-refs/1_summary_obj.R inst/test-refs/read-output-refs/1_ext_ref_floor0.R inst/test-refs/read-output-refs/1_ext_ref_floorNULL.R inst/test-refs/read-output-refs/1_grd_ref_floor0.R inst/test-refs/read-output-refs/1_grd_ref_floor10.R inst/test-refs/read-output-refs/1_grd_ref_floorNULL.R man-roxygen/nm-join-col-eg.R man-roxygen/nm-join-col-firstonly.R man-roxygen/nm-join-col-tables.R man-roxygen/nm-join-col.R man-roxygen/nonmem-mod-ext.R man/BBI_ARGS.Rd man/add_log_impl.Rd man/add_model_status.Rd man/add_na_filter.Rd man/add_param_shrinkage.Rd man/add_run_id_col.Rd man/add_to_path_message.Rd man/adjust_estimation_options.Rd man/apply_indices.Rd man/as_summary_list.Rd man/assert_bbi_version.Rd man/assert_nm_table_format.Rd man/assert_record_type.Rd man/bbi_current_release.Rd man/bbi_dry_run.Rd man/bbi_exec.Rd man/bbi_help.Rd man/bbi_init.Rd man/bbi_nonmem_model_status.Rd man/bbi_version.Rd man/bbr.Rd man/build_bbi_install_path.Rd man/build_bbi_param_list.Rd man/build_matrix_indices.Rd man/build_new_model_path.Rd man/build_path_from_model.Rd man/check_bbi_args.Rd man/check_bbi_exe.Rd man/check_bbi_run_log_df_object.Rd man/check_cor_threshold.Rd man/check_file.Rd man/check_for_existing_model.Rd man/check_lst_file.Rd man/check_mode_argument.Rd man/check_model_for_sim.Rd man/check_model_object.Rd man/check_model_object_list.Rd man/check_nonmem_table_bbi.Rd man/check_nonmem_table_output.Rd man/check_os.Rd man/check_output_dir.Rd man/check_record_val.Rd man/check_run_times.Rd man/check_status_code.Rd man/check_up_to_date.Rd man/check_up_to_date_nonmem.Rd man/clean_ctl.Rd man/cleanup_bootstrap_run.Rd man/collapse_to_string.Rd man/color_model_type.Rd man/color_status.Rd man/combine_list_objects.Rd man/config_log.Rd man/config_log_entry.Rd man/config_log_impl.Rd man/config_log_make_entry.Rd man/copy_control_stream.Rd man/copy_model_from.Rd man/copy_model_from_impl.Rd man/cov_cor.Rd man/create_bbi_object.Rd man/create_model_hook.Rd man/current_release_url.Rd man/delete_models.Rd man/dev_error.Rd man/download_bbi.Rd man/download_with_retry.Rd man/drop_dups.Rd man/execute_nmtran.Rd man/extract_from_summary.Rd man/file_matches.Rd man/file_matches_string.Rd man/filter_nm_data.Rd man/find_models.Rd man/find_nonmem_model_file_path.Rd man/fmt_record_num.Rd man/format_cmd_args.Rd man/format_matrix.Rd man/format_model_type.Rd man/get_based_on.Rd man/get_boot_spec.Rd man/get_data_path.Rd man/get_model_id.Rd man/get_model_working_directory.Rd man/get_msf_path.Rd man/get_next_integer.Rd man/get_omega.Rd man/get_param.Rd man/get_path_from_log_df.Rd man/get_path_from_object.Rd man/get_sim_replicate_record.Rd man/get_sim_spec.Rd man/get_spec_path.Rd man/get_theta_inits.Rd man/highlight_cell.Rd man/inherit_param_estimates.Rd man/initial_estimates.Rd man/install_menu.Rd man/invert_operator.Rd man/is_diag.Rd man/is_valid_nonmem_extension.Rd man/is_valid_yaml_extension.Rd man/make_boot_run.Rd man/make_boot_spec.Rd man/make_tree_data.Rd man/map_list_recursive.Rd man/mod_list_setup.Rd man/model_diff.Rd man/model_diff_get_comp.Rd man/model_diff_impl.Rd man/model_status.Rd man/model_summaries.Rd man/model_summary.Rd man/model_tree.Rd man/model_tree_png.Rd man/modify_based_on.Rd man/modify_bbi_args.Rd man/modify_description.Rd man/modify_model_field.Rd man/modify_model_field_lgl.Rd man/modify_notes.Rd man/modify_records.Rd man/modify_star.Rd man/modify_tags.Rd man/na_to_null.Rd man/new_bootstrap_run.Rd man/new_ext.Rd man/new_model.Rd man/new_sim_model.Rd man/nm_file.Rd man/nm_file_impl.Rd man/nm_file_multi_tab.Rd man/nm_join.Rd man/nm_join_impl.Rd man/nm_join_sim.Rd man/nm_tables.Rd man/nmtran_setup.Rd man/nonmem_summary.Rd man/open_model_file.Rd man/param_estimates.Rd man/param_estimates_batch.Rd man/param_estimates_compare.Rd man/param_labels.Rd man/parse_args_list.Rd man/parse_cov_cor_full_file.Rd man/parse_ctl_to_list.Rd man/parse_nmtran_args.Rd man/parse_param_comment.Rd man/pipe.Rd man/plot_nonmem_table_df.Rd man/print_bbi.Rd man/print_bbi_args.Rd man/print_model_files.Rd man/read_bbi_path.Rd man/read_model.Rd man/register_model_type.Rd man/remove_dup_cols.Rd man/req_tree_pkgs.Rd man/resolve_nonmem_version.Rd man/run_log.Rd man/run_log_entry.Rd man/run_nmtran.Rd man/safe_based_on.Rd man/safe_read_model.Rd man/sanitize_file_extension.Rd man/save_model_yaml.Rd man/set_bbi_null.Rd man/setup_bootstrap_run.Rd man/setup_sim_run.Rd man/sig.Rd man/simulate.Rd man/skip_if_not_ci_or_metworx.Rd man/skip_if_old_bbi.Rd man/skip_if_old_nmrec.Rd man/skip_if_over_rate_limit.Rd man/skip_long_tests.Rd man/stop_get_fail_msg.Rd man/stop_get_scalar_msg.Rd man/strict_mode_error.Rd man/style_html.Rd man/submit_model.Rd man/submit_models.Rd man/submit_nonmem_model.Rd man/summarize_bootstrap.Rd man/summary_log.Rd man/summary_log_impl.Rd man/suppressSpecificWarning.Rd man/tags_diff.Rd man/test_nmrec_version.Rd man/test_threads.Rd man/translate_nm_expr.Rd man/translate_nm_operator.Rd man/tweak_initial_estimates.Rd man/tweak_thetas.Rd man/unquote_filename.Rd man/update_model_id.Rd man/use_bbi.Rd man/using_old_priors.Rd man/validate_parent_mod.Rd man/verbose_msg.Rd man/verify_model_yaml_integrity.Rd man/version_message.Rd tests/testthat.R tests/testthat/helpers-create-example-model.R tests/testthat/setup-param-labels-ref.R tests/testthat/setup-workflow-ref.R tests/testthat/test-bbr.R tests/testthat/test-check-up-to-date.R tests/testthat/test-collapse-to-string.R tests/testthat/test-config-log.R tests/testthat/test-copy-model-from.R tests/testthat/test-copy-model-helpers.R tests/testthat/test-cov-cor.R tests/testthat/test-filter-nm-data.R tests/testthat/test-get-based-on.R tests/testthat/test-get-param.R tests/testthat/test-get-path-from-object.R tests/testthat/test-inherit-param-estimates.R tests/testthat/test-initial-estimates.R tests/testthat/test-model-diff.R tests/testthat/test-model-status.R tests/testthat/test-model-summaries.R tests/testthat/test-model-summary.R tests/testthat/test-model-tree.R tests/testthat/test-modify-model-field.R tests/testthat/test-modify-records.R tests/testthat/test-new-model.R tests/testthat/test-nm-file.R tests/testthat/test-nm-join.R tests/testthat/test-nm-tables.R tests/testthat/test-param-estimates-batch.R tests/testthat/test-param-estimates.R tests/testthat/test-param-labels.R tests/testthat/test-print.R tests/testthat/test-read-bbi-path.R tests/testthat/test-read-output.R tests/testthat/test-run-log.R tests/testthat/test-run-nmtran.R tests/testthat/test-submit-model.R tests/testthat/test-submit-models.R tests/testthat/test-summary-log.R tests/testthat/test-tags-diff.R tests/testthat/test-test-threads.R tests/testthat/test-tweak-initial-estimates.R tests/testthat/test-use-bbi.R tests/testthat/test-utils.R tests/testthat/test-workflow-bbi.R tests/testthat/test-workflow-bootstrap.R tests/testthat/test-workflow-simulation.R vignettes/getting-started.Rmd vignettes/model-tree.Rmd vignettes/nonmem-parallel.Rmd vignettes/parameter-labels.Rmd vignettes/using-based-on.Rmd vignettes/using-summary-log.Rmd