v0.3.2-rc2

New Functions and Functionality

• Added g_lineplot() for creating line plots with optional summary statistics table. Includes helper functions calc_stats(), g_lineplot_table(), and preprocess_lineplot_data().
• Added ard_tabulate_abnormal_by_baseline() for creating an Analysis Results Data (ARD) object counting participants with abnormal assessments, stratified by their baseline status.
• Added tbl_mmrm() and get_mmrm_results() functions to create regression tables for Mixed Models for Repeated Measures (MMRM). (#163)
• Added gg_mmrm_lineplot() to create line plots of MMRM results. (#181)
• Added gg_pkc_lineplot() to create line plots for PK data. (#185)
• Added annotate_gg_pkc() to add optional summary statistics table to
  gg_pkc_lineplot(). (#189)
• Refactored the underlying data.frame alignment and rendering methodology used for plot annotations. Functions for table annotation now use a completely rebuilt engine that ensures X-axis synchronization for stacked tables (annotate_riskdf()) and flexible, reliable placement for floating tables (annotate_surv_med(), annotate_coxph()). (#189)
• Refactored functions for lineplot plotting - added gg_lineplot() and annotate_gg() to create lineplots and annotate summary statistics table. (#184)
• Added functions reverse_ci(), reverse_rate_difference() to reverse confidence intervals and rate differences in tables from add_row_difference(). (#204)
• g_lineplot(), g_lineplot_table(), and preprocess_lineplot_data() were deprecated. (#184)
• Added tbl_coxph() to render pairwise Cox proportional hazards results as a gtsummary table. (#159)
• Added tbl_hierarchical_incidence_rate() which computes the incidence rate of adverse events (#211)
• Added adjust_stat_columns_wrap() which keep the presentation of statistics in one row (#219)
• get_cox_pairwise_df() now allows for different methods to compute p-value (#191) and to handle ties (#193).
• tbl_coxph() now accepts a data.frame created by get_cox_pairwise_df() as input. (#207)
• Added add_grade_column() to inject a grade-label column into tbl_hierarchical_rate_by_grade() output. Decoupled from the table builder to prevent Cartesian join explosion in tbl_merge(). (#226)
• get_cox_pairwise_df() now fully supports strata() terms in survival formulas (#256).
• The "likelihood-ratio" test now intelligently switches between survival::survreg() (for unstratified models) and survival::coxph() (for stratified models) (#256).
• Stripped package namespace prefixes (e.g., survival::) from survival formulas to prevent evaluation errors (#256).
• Added ... support in get_cox_pairwise_df() for conf.int (e.g., to adjust CI level) and robust = TRUE (for robust standard errors).

Other Updates

• tbl_hierarchical_rate_and_count() now emits zero-rows for unobserved factor levels in the first hierarchical variable. (#233)
• df2gg_aligned() and df2gg_floating() now preserve original ggplot objects in attr(result, "plotlist") for downstream data extraction after combining with cowplot. (#208)
• Remove warning when data has more levels than needed for grade_groups on tbl_hierarchical_rate_by_grade.
• Changed the default conf.type from "log" to "plain" (linear) in tbl_survfit_times() and tbl_survfit_quantiles() to align with GDSR guidelines. (#173)
• Removed bold from headers when using tbl_strata() (#133).
• Unified border width in theme_gtsummary_roche() to 0.5 for header. (#154)
• Added example on how to stratify tbl_baseline_chg() by PARAM and split into a list.
• Adjusted tbl_mmrm() to allow base_df = NULL.
• Fixed two bugs related to summary statistics calculation in ard_tabulate_abnormal_by_baseline(). (#198)
• Fixed a bug in gg_pkc_lineplot() causing misplaced error bars on a log scale. (#199)
• Adjusted gg_pkc_lineplot() to use tbl_roche_summary() for automatic decimals formatting.
• Adjusted tbl_hierarchical_incidence_rate() to handle first event as well as
  all events (#217)
• Adjusted tbl_baseline_chg() to allow for custiomization of display statistics (#222)
• Changed baseline statistic argument in tbl_baseline_chg() (#224)
• Adjusted modify_zero_recode() to account for strings comprising regular and non-breaking spaces (#230)
• tbl_roche_subgroups() now shows n, Events, and Median per arm when time_to_event is specified. The total column shows Total Events instead of Total n. (#235)
• Skip tests if suggested packages are missing (Failing test due to missing suggested package #252, @llrs-roche)
• The default "log-rank" test now uses survival::survdiff() instead of coin, aligning output more closely with SAS and rtables

What's Changed

• Addition of split_by for param and paramcd by @Melkiades in #155
• Remove bold spanning header as default. It should be applied to all spanning headers? by @Melkiades in #134
• fix alignment x-axis for gg_km by @Melkiades in #153
• removal split_by from baseline_chg. Reverting to native gtsummary by @Melkiades in #168
• forest plot rework by @Melkiades in #162
• Update DESCRIPTION by @shajoezhu in #177
• Lineplot@main by @BFalquet in #166
• Hot fix row names by @Melkiades in #178
• Add tbl_mmrm() for MMRM regression tables by @Copilot in #165
• to support lbt06 table creation by @shajoezhu in #179
• Add gg_pkc_lineplot by @jszczypinski in #187
• gg_mmrm_lineplot addition by @Melkiades in #182
• Adding annotate_gg_pkc by @jszczypinski in #190
• "Fixing two bugs critical for lbt06" by @jszczypinski in #197
• Add tbl_rmpt() for Risk Management Plans tables by @chizapoth in #195
• Gg_pkc_lineplot_fix_error_bars by @jszczypinski in #200
• small utility functions for negating ci and difference by @chizapoth in #205
• 184_adjust_gg_lineplot by @jszczypinski in #203
• Fix get_cox_pairwise_df returning NA hazard ratios when arm has >2 levels by @Copilot in #194
• Adding tbl_coxph - a function to get a gtsummary object of pairwise cox proportional hazards test by @jszczypinski in #206
• Default conf.type to "plain" in tbl_survfit_times() and tbl_survfit_quantiles() by @Copilot in #196
• Activate revdepcheck on the CI by @llrs-roche in #210
• Remove warning on table creation by @llrs-roche in #209
• Add tbl hierarchical incidence rate by @jszczypinski in #214
• 217 adjust tbl hierarchical incidence rate by @jszczypinski in #218
• 212 add poolings@main by @Melkiades in #213
• Adjust tbl_baseline_chg by @jszczypinski in #222
• Fix default value for statistic in tbl_baseline_chg by @jszczypinski in #225
• 219 add protect stat columns by @jszczypinski in #220
• Use plotlist argument in plot_grid() to preserve ggplot data by @Melkiades in #229
• 230 modify modify zero recode by @jszczypinski in #231
• feat: tbl_roche_subgroups() shows event counts for time-to-event by @Melkiades in #236
• feat: emit zero-rows for unobserved factor levels in tbl_hierarchical_rate_and_count() by @Melkiades in #234
• 239 fix tests fails deps by @jszczypinski in #240
• fix: extract .apply_hierarchical_indent() for consistent indentation by @Melkiades in #238
• 242 fix tests warnings by @jszczypinski in #243
• 191 193 coxph pvalue ci method by @jszczypinski in #244
• Make warnings on tests fail the test. by @llrs-roche in #248
• 207 tbl coxph work with get cox pairwise df by @jszczypinski in #245
• Skip tests if suggested dependency is missing by @llrs-roche in #253
• fix: decouple visual styling from tbl_hierarchical_rate_by_grade to prevent Cartesian join explosion by @Melkiades in #228
• Skip if suggested package is missing by @llrs-roche in #259
• 256 get cox pairwise df strata in formulas by @jszczypinski in #258

New Contributors

• @BFalquet made their first contribution in #166
• @Copilot made their first contribution in #165
• @jszczypinski made their first contribution in #187
• @chizapoth made their first contribution in #195
• @llrs-roche made their first contribution in #210

Full Changelog: v0.3.1...vX.Y.Z-rc1