v0.9.4

New Features

• Added h_glm_negbin to h_glm_count to enable count data analysis using a negative binomial model.
• Added argument grade_groups_only to count_occurrences_by_grade to allow users to only display rows for specified grade groups.
• Added internal function df2gg that converts data.frame objects to ggplot objects.
• Added functions control_surv_med_annot and control_coxph_annot to configure g_km annotation table sizes/positions.
• Refactored g_km to output a ggplot object instead of a grob object.
• Refactored g_forest to output a ggplot object instead of a grob object.

Enhancements

• Default format for mean p-values (mean_pval) updated from "xx.xx" to "x.xxxx | (<0.0001)".

Bug Fixes

• Fixed nested column split label overlay issue in rtable2gg to clean up appearance of text labels.
• Fixed bug in s_ancova causing incorrect difference calculations for arm variables with irregular levels.
• Fixed bug in format_count_fraction_fixed_dp that did not have the same print when the fraction was 1 (100%).
• Fixed bug in g_lineplot causing default labels not to update according to specified control settings.
• Fixed bug causing an error when automatic value formatting was applied to NA values.

Miscellaneous

• Added function expect_snapshot_ggplot to test setup file to process plot snapshot tests and allow plot dimensions to be set.
• Adapted to argument renames introduced in ggplot2 3.5.0.
• Renamed individual_patient_plot.R to g_ipp.R.
• Removed all instances of deprecated parameters time_unit_input, time_unit_output, na_level and indent_mod.
• Removed deprecated functions summarize_vars, control_summarize_vars, a_compare, create_afun_summary, create_afun_compare, and summary_custom.
• Removed vdiffr package from Suggests in DESCRIPTION file.
• Began deprecation of the named element strat, to be renamed to strata, within the variables argument to h_rsp_to_logistic_variables, h_logistic_mult_cont_df, h_odds_ratio_subgroups_df, h_coxreg_mult_cont_df, h_coxph_subgroups_df, h_tbl_coxph_pairwise, extract_rsp_biomarkers, extract_rsp_subgroups, extract_survival_biomarkers, and extract_survival_subgroups.
• Began deprecation of the strat argument to s_coxph_pairwise and replaced it with the strata argument.
• Began deprecation of the forest_grob, forest_dot_line, forest_viewport, vp_forest_table_part, and grid.forest functions.
• Began deprecation of no longer used Kaplan-Meier helper functions h_ggkm, h_decompose_gg, h_km_layout, h_grob_tbl_at_risk, h_grob_median_surv, h_grob_y_annot, and h_grob_coxph.
• Began deprecation of grob/grid related functions stack_grobs, arrange_grobs, and draw_grob which are no longer used in tern.

What's Changed

• Workflow propagation by @walkowif in #1159
• Refactor g_forest by @edelarua in #1158
• Fix graph snapshot tests by @edelarua in #1165
• update snapshots by @ayogasekaram in #1166
• add h_glm_negbin() by @duanx9 in #1163
• Fix irregular arm levels calculation bug in s_ancova by @edelarua in #1169
• Add option grade_groups_only to count_occurrences_by_grade by @edelarua in #1170
• Fix README links by @edelarua in #1174
• Adding Bland- Altman statistical function by @linc50 in #1135
• Fix warnings in examples by @edelarua in #1180
• fix roxygenise deps; styler by @pawelru in #1183
• Fix pkgdown redirect by @vedhav in #1185
• Propagate files from insightsengineering/.github by @insights-engineering-bot in #1187
• [skip actions] Propagate files from insightsengineering/.github by @insights-engineering-bot in #1188
• #nolintr to # nolint by @pawelru in #1189
• Update DESCRIPTION, update author list by @shajoezhu in #1190
• Skip plot snapshot testing by @edelarua in #1194
• Fix typo, ggplot2 update warnings by @edelarua in #1197
• Replace strat with strata by @edelarua in #1198
• fix format precision for format_count_fraction_fixed_dp by @Melkiades in #1192
• options for strict tests; few enhancements by @pawelru in #1182
• Fix integration tests by @edelarua in #1200
• Update default format for mean p-values by @edelarua in #1204
• rename trans to transform by @pawelru in #1202
• add snaps for bland-altman function by @ayogasekaram in #1201
• Remove deprecated functions, deprecate forest plot helpers by @edelarua in #1211
• Fix g_lineplot default labels by @edelarua in #1213
• Refactor g_km by @edelarua in #1210
• Accept NULL to get_labels_from_stats by @edelarua in #1215
• Revert deprecation of decorate_grob-related functions used by citril by @edelarua in #1219
• fix verdepcheck by @pawelru in #1216
• Fix auto formatting for NA values by @edelarua in #1220
• Minor documentation clean up by @edelarua in #1222
• Workflow propagation by @walkowif in #1206
• add faceting variable to g_lineplot. add code to maintain factor levels. by @ayogasekaram in #1226
• Add tests for functions with missing coverage by @edelarua in #1229
• [skip vbump], preping for 0.9.4 release by @shajoezhu in #1227

New Contributors

• @duanx9 made their first contribution in #1163
• @linc50 made their first contribution in #1135
• @vedhav made their first contribution in #1185

Full Changelog: v0.9.3...v0.9.4