Files in tern

Create Common TLGs Used in Clinical Trials

NEWS.md README.md R/utils_factor.R R/survival_biomarkers_subgroups.R R/response_subgroups.R R/cox_regression.R R/h_incidence_rate.R R/h_cox_regression.R R/summarize_colvars.R R/coxph.R R/h_pkparam_sort.R R/logistic_regression.R R/summarize_coxreg.R R/h_response_biomarkers_subgroups.R R/g_step.R R/count_patients_events_in_cols.R R/h_biomarkers_subgroups.R R/formatting_functions.R R/control_step.R R/summarize_glm_count.R R/rtables_access.R R/count_occurrences.R R/estimate_proportion.R R/utils_checkmate.R R/incidence_rate.R R/summarize_functions.R R/summarize_num_patients.R R/g_forest.R R/control_survival.R R/count_missed_doses.R R/decorate_grob.R R/fit_survival_step.R R/summarize_patients_exposure_in_cols.R R/control_logistic.R R/d_pkparam.R R/survival_coxph_pairwise.R R/prune_occurrences.R R/h_survival_biomarkers_subgroups.R R/count_cumulative.R R/abnormal_by_worst_grade.R R/g_lineplot.R R/control_incidence_rate.R R/h_km.R R/abnormal_by_baseline.R R/g_waterfall.R R/data.R R/summarize_change.R R/analyze_vars_in_cols.R R/score_occurrences.R R/utils_split_funs.R R/odds_ratio.R R/count_occurrences_by_grade.R R/survival_time.R R/h_logistic_regression.R R/h_stack_by_baskets.R R/argument_convention.R R/df_explicit_na.R R/riskdiff.R R/compare_variables.R R/count_values.R R/prop_diff_test.R R/split_cols_by_groups.R R/combination_function.R R/fit_rsp_step.R R/cox_regression_inter.R R/analyze_colvars_functions.R R/count_patients_with_flags.R R/survival_duration_subgroups.R R/h_response_subgroups.R R/abnormal_by_worst_grade_worsen.R R/missing_data.R R/utils_default_stats_formats_labels.R R/summarize_ancova.R R/desctools_binom_diff.R R/package.R R/estimate_multinomial_rsp.R R/response_biomarkers_subgroups.R R/utils_grid.R R/utils_ggplot.R R/utils_rtables.R R/abnormal.R R/survival_timepoint.R R/g_km.R R/bland_altman.R R/h_adsl_adlb_merge_using_worst_flag.R R/imputation_rule.R R/stat.R R/h_survival_duration_subgroups.R R/analyze_variables.R R/count_patients_with_event.R R/analyze_functions.R R/abnormal_by_marked.R R/prop_diff.R R/h_step.R R/utils.R R/g_ipp.R R/h_map_for_count_abnormal.R inst/doc/tern.R inst/doc/tern_formats.Rmd inst/doc/missing_values.Rmd inst/doc/tables.R inst/doc/missing_values.R inst/doc/tern.Rmd inst/doc/tern_formats.R inst/doc/tables.Rmd tests/testthat.R tests/testthat/test-h_survival_duration_subgroups.R tests/testthat/test-g_lineplot.R tests/testthat/test-h_pkparam_sort.R tests/testthat/test-analyze_vars_in_cols.R tests/testthat/test-test_proportion_diff.R tests/testthat/test-utils_split_fun.R tests/testthat/test-estimate_proportion.R tests/testthat/test-abnormal.R tests/testthat/test-summarize_colvars.R tests/testthat/test-utils_ggplot.R tests/testthat/test-g_km.R tests/testthat/test-utils_rtables.R tests/testthat/test-odds_ratio.R tests/testthat/test-stat.R tests/testthat/test-summarize_patients_exposure_in_cols.R tests/testthat/test-abnormal_by_worst_grade.R tests/testthat/test-utils.R tests/testthat/test-count_patients_with_event.R tests/testthat/test-prune_occurrences.R tests/testthat/test-make_afun.R tests/testthat/test-survival_coxph_pairwise.R tests/testthat/test-estimate_multinom_rsp.R tests/testthat/test-count_occurrences.R tests/testthat/test-df_explicit_na.R tests/testthat/test-utils_factor.R tests/testthat/test-response_subgroups.R tests/testthat/test-summarize_num_patients.R tests/testthat/test-utils_default_stats_formats_labels.R tests/testthat/test-count_missed_doses.R tests/testthat/test-rtables_access.R tests/testthat/test-h_format_row.R tests/testthat/test-decorate_grob.R tests/testthat/test-summarize_glm_count.R tests/testthat/test-h_km.R tests/testthat/test-split_cols_by_groups.R tests/testthat/test-survival_time.R tests/testthat/test-incidence_rate.R tests/testthat/test-combination_function.R tests/testthat/test-h_incidence_rate.R tests/testthat/test-utils_checkmate.R tests/testthat/test-count_values.R tests/testthat/test-abnormal_by_marked.R tests/testthat/test-count_occurrences_by_grade.R tests/testthat/test-g_forest.R tests/testthat/test-logistic_regression.R tests/testthat/test-h_map_for_count_abnormal.R tests/testthat/test-control_step.R tests/testthat/test-fit_rsp_step.R tests/testthat/test-g_waterfall.R tests/testthat/test-summarize_change.R tests/testthat/test-score_occurrences.R tests/testthat/test-utils_grid.R tests/testthat/test-control_survival.R tests/testthat/test-summarize_ancova.R tests/testthat/test-g_step.R tests/testthat/setup-options.R tests/testthat/test-compare_variables.R tests/testthat/Rplots.pdf tests/testthat/test-response_biomarkers_subgroups.R tests/testthat/test-coxreg.R tests/testthat/test-abnormal_by_baseline.R tests/testthat/test-analyze_variables.R tests/testthat/test-summarize_coxreg.R tests/testthat/test-fit_survival_step.R tests/testthat/test-h_step.R tests/testthat/test-individual_patient_plot.R tests/testthat/test-formatting_functions.R tests/testthat/test-h_logistic_regression.R tests/testthat/test-survival_timepoint.R tests/testthat/test-h_response_biomarkers_subgroups.R tests/testthat/test-imputation_rule.R tests/testthat/test-h_survival_biomarkers_subgroups.R tests/testthat/test-bland-altman.R tests/testthat/test-count_patients_events_in_cols.R tests/testthat/setup.R tests/testthat/test-survival_biomarkers_subgroups.R tests/testthat/test-h_adsl_adlb_merge_using_worst_flag.R tests/testthat/test-prop_diff.R tests/testthat/test-count_cumulative.R tests/testthat/test-survival_duration_subgroups.R tests/testthat/test-count_patients_with_flags.R tests/testthat/test-control_logistic.R tests/testthat/test-coxph.R tests/testthat/test-h_response_subgroups.R tests/testthat/test-h_stack_by_baskets.R tests/testthat/test-abnormal_by_worst_grade_worsen.R tests/testthat/test-desctools_binom_diff.R tests/testthat/_snaps/h_survival_duration_subgroups.md tests/testthat/_snaps/incidence_rate.md tests/testthat/_snaps/response_subgroups.md tests/testthat/_snaps/control_logistic.md tests/testthat/_snaps/fit_rsp_step.md tests/testthat/_snaps/h_map_for_count_abnormal.md tests/testthat/_snaps/h_response_biomarkers_subgroups.md tests/testthat/_snaps/survival_duration_subgroups.md tests/testthat/_snaps/h_logistic_regression.md tests/testthat/_snaps/estimate_incidence_rate.md tests/testthat/_snaps/control_step.md tests/testthat/_snaps/survival_time.md tests/testthat/_snaps/make_afun.md tests/testthat/_snaps/score_occurrences.md tests/testthat/_snaps/utils_rtables.md tests/testthat/_snaps/summarize_num_patients.md tests/testthat/_snaps/control_survival.md tests/testthat/_snaps/summarize_patients_exposure_in_cols.md tests/testthat/_snaps/split_cols_by_groups.md tests/testthat/_snaps/prune_occurrences.md tests/testthat/_snaps/logistic_regression.md tests/testthat/_snaps/imputation_rule.md tests/testthat/_snaps/stat.md tests/testthat/_snaps/h_step.md tests/testthat/_snaps/g_step.md tests/testthat/_snaps/h_survival_biomarkers_subgroups.md tests/testthat/_snaps/decorate_grob.md tests/testthat/_snaps/formatting_functions.md tests/testthat/_snaps/count_occurrences.md tests/testthat/_snaps/count_missed_doses.md tests/testthat/_snaps/h_adsl_adlb_merge_using_worst_flag.md tests/testthat/_snaps/abnormal_by_marked.md tests/testthat/_snaps/summarize_change.md tests/testthat/_snaps/prop_diff.md tests/testthat/_snaps/h_format_row.md tests/testthat/_snaps/utils_split_fun.md tests/testthat/_snaps/df_explicit_na.md tests/testthat/_snaps/survival_coxph_pairwise.md tests/testthat/_snaps/analyze_vars_in_cols.md tests/testthat/_snaps/h_incidence_rate.md tests/testthat/_snaps/rtables_access.md tests/testthat/_snaps/summarize_glm_count.md tests/testthat/_snaps/summarize_colvars.md tests/testthat/_snaps/estimate_multinom_rsp.md tests/testthat/_snaps/test_proportion_diff.md tests/testthat/_snaps/count_occurrences_by_grade.md tests/testthat/_snaps/count_patients_events_in_cols.md tests/testthat/_snaps/utils_default_stats_formats_labels.md tests/testthat/_snaps/count_values.md tests/testthat/_snaps/survival_biomarkers_subgroups.md tests/testthat/_snaps/utils.md tests/testthat/_snaps/abnormal_by_worst_grade_worsen.md tests/testthat/_snaps/bland-altman.md tests/testthat/_snaps/count_cumulative.md tests/testthat/_snaps/coxreg.md tests/testthat/_snaps/h_km.md tests/testthat/_snaps/desctools_binom_diff.md tests/testthat/_snaps/h_stack_by_baskets.md tests/testthat/_snaps/survival_timepoint.md tests/testthat/_snaps/summarize_coxreg.md tests/testthat/_snaps/estimate_proportion.md tests/testthat/_snaps/abnormal_by_baseline.md tests/testthat/_snaps/response_biomarkers_subgroups.md tests/testthat/_snaps/fit_survival_step.md tests/testthat/_snaps/summarize_ancova.md tests/testthat/_snaps/h_response_subgroups.md tests/testthat/_snaps/coxph.md tests/testthat/_snaps/utils_factor.md tests/testthat/_snaps/count_patients_with_event.md tests/testthat/_snaps/compare_variables.md tests/testthat/_snaps/h_pkparam_sort.md tests/testthat/_snaps/odds_ratio.md tests/testthat/_snaps/count_patients_with_flags.md tests/testthat/_snaps/abnormal_by_worst_grade.md tests/testthat/_snaps/analyze_variables.md tests/testthat/_snaps/abnormal.md vignettes/tern_formats.Rmd vignettes/missing_values.Rmd vignettes/tern.Rmd vignettes/tables.Rmd man/split_text_grob.Rd man/h_km_layout.Rd man/stat_mean_pval.Rd man/extract_survival_biomarkers.Rd man/g_forest.Rd man/to_string_matrix.Rd man/g_lineplot.Rd man/stack_grobs.Rd man/argument_convention.Rd man/h_response_subgroups.Rd man/h_worsen_counter.Rd man/format_extreme_values_ci.Rd man/add_riskdiff.Rd man/tidy.step.Rd man/control_coxph.Rd man/df_explicit_na.Rd man/prune_occurrences.Rd man/h_xticks.Rd man/combination_function.Rd man/stat_mean_ci.Rd man/reapply_varlabels.Rd man/empty_vector_if_na.Rd man/n_available.Rd man/h_proportions.Rd man/control_riskdiff.Rd man/format_fraction.Rd man/analyze_functions.Rd man/default_stats_formats_labels.Rd man/groups_list_to_df.Rd man/s_cox_multivariate.Rd man/h_odds_ratio.Rd man/abnormal_by_worst_grade_worsen.Rd man/h_stack_by_baskets.Rd man/f_conf_level.Rd man/check_diff_prop_ci.Rd man/h_response_biomarkers_subgroups.Rd man/count_values.Rd man/summarize_functions.Rd man/h_ggkm.Rd man/survival_biomarkers_subgroups.Rd man/format_count_fraction_fixed_dp.Rd man/summarize_ancova.Rd man/utils_split_funs.Rd man/control_lineplot_vars.Rd man/d_count_abnormal_by_baseline.Rd man/summarize_change.Rd man/summarize_patients_exposure_in_cols.Rd man/stat_median_ci.Rd man/muffled_car_anova.Rd man/forest_viewport.Rd man/format_auto.Rd man/h_grob_coxph.Rd man/extract_rsp_biomarkers.Rd man/logistic_summary_by_flag.Rd man/abnormal_by_marked.Rd man/as.rtable.Rd man/analyze_vars_in_cols.Rd man/h_cox_regression.Rd man/split_cols_by_groups.Rd man/explicit_na.Rd man/d_count_cumulative.Rd man/tidy_coxreg.Rd man/bins_percent_labels.Rd man/prop_diff.Rd man/control_analyze_vars.Rd man/extract_survival_subgroups.Rd man/combine_groups.Rd man/update_weights_strat_wilson.Rd man/f_pval.Rd man/h_glm_count.Rd man/count_patients_with_flags.Rd man/control_coxreg.Rd man/d_proportion_diff.Rd man/format_sigfig.Rd man/incidence_rate.Rd man/h_split_param.Rd man/cox_regression_inter.Rd man/labels_or_names.Rd man/h_pkparam_sort.Rd man/as_factor_keep_attributes.Rd man/response_subgroups.Rd man/control_logistic.Rd man/d_test_proportion_diff.Rd man/h_grob_y_annot.Rd man/control_incidence_rate.Rd man/unlist_and_blank_na.Rd man/abnormal_by_baseline.Rd man/survival_time.Rd man/h_decompose_gg.Rd man/h_tbl_median_surv.Rd man/h_logistic_regression.Rd man/combine_vectors.Rd man/g_waterfall.Rd man/sas_na.Rd man/g_step.Rd man/tidy.glm.Rd man/g_km.Rd man/survival_coxph_pairwise.Rd man/afun_selected_stats.Rd man/extreme_format.Rd man/decorate_grob_factory.Rd man/to_n.Rd man/h_tab_one_biomarker.Rd man/h_adsl_adlb_merge_using_worst_flag.Rd man/rtable2gg.Rd man/combine_levels.Rd man/score_occurrences.Rd man/g_ipp.Rd man/count_patients_events_in_cols.Rd man/d_count_missed_doses.Rd man/survival_timepoint.Rd man/h_data_plot.Rd man/fct_collapse_only.Rd man/count_patients_with_event.Rd man/afun_riskdiff.Rd man/summarize_colvars.Rd man/month2day.Rd man/fit_survival_step.Rd man/h_format_row.Rd man/univariate.Rd man/odds_ratio.Rd man/labels_use_control.Rd man/decorate_grob_set.Rd man/c_label_n.Rd man/h_ppmeans.Rd man/h_prop_diff.Rd man/try_car_anova.Rd man/format_fraction_threshold.Rd man/summarize_logistic.Rd man/default_na_str.Rd man/format_count_fraction.Rd man/h_adlb_worsen.Rd man/day2month.Rd man/fit_coxreg.Rd man/h_map_for_count_abnormal.Rd man/summarize_num_patients.Rd man/h_col_indices.Rd man/analyze_colvars_functions.Rd man/study_arm.Rd man/aesi_label.Rd man/formatting_functions.Rd man/estimate_coef.Rd man/extract_rsp_subgroups.Rd man/h_survival_biomarkers_subgroups.Rd man/response_biomarkers_subgroups.Rd man/h_split_by_subgroups.Rd man/bland_altman.Rd man/draw_grob.Rd man/h_append_grade_groups.Rd man/imputation_rule.Rd man/df2gg.Rd man/apply_auto_formatting.Rd man/summarize_glm_count.Rd man/count_cumulative.Rd man/h_grob_median_surv.Rd man/desctools_binom.Rd man/estimate_proportion.Rd man/format_xx.Rd man/extract_by_name.Rd man/cut_quantile_bins.Rd man/range_noinf.Rd man/h_adlb_abnormal_by_worst_grade.Rd man/d_pkparam.Rd man/h_tbl_coxph_pairwise.Rd man/decorate_grob.Rd man/d_onco_rsp_label.Rd man/strata_normal_quantile.Rd man/h_g_ipp.Rd man/abnormal_by_worst_grade.Rd man/control_surv_timepoint.Rd man/rtables_access.Rd man/cox_regression.Rd man/survival_duration_subgroups.Rd man/add_rowcounts.Rd man/arrange_grobs.Rd man/h_survival_duration_subgroups.Rd man/ungroup_stats.Rd man/tern-package.Rd man/combine_counts.Rd man/format_fraction_fixed_dp.Rd man/get_smooths.Rd man/fct_discard.Rd man/estimate_multinomial_rsp.Rd man/count_missed_doses.Rd man/count_occurrences_by_grade.Rd man/d_proportion.Rd 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