metalite.ae 0.1.4

New features

The new gt_ae_specific() function is developed to output AE specific tables in gt format (#235, thanks to @LittleBeannie).
The new gt_ae_summary() function renders formatted adverse event summaries as gt tables, including titles, treatment-group spanners, footnotes, and source notes (#215, thanks to @ginnaram13).
rate_compare() and rate_compare_sum() now accept a bisection argument to control the number of sections used by the bisection method (#221, thanks to @lm3388).
The analysis argument is now required by all tlf_*() functions so that table titles are generated from the selected analysis metadata (#207, thanks to @lm3388).
meta_ae_example() is no longer exported. Package examples now construct metadata directly from the example datasets in forestly (#229, thanks to @LittleBeannie).
Added interactive AE listing workflow support with new format_ae_listing() and react_ae_listing() functions for structured listing formatting and reactable-based rendering (#239, thanks to @LittleBeannie).

format_ae_summary() now uses parameter labels when custom parameters do not define summ_row, preventing row-name and summary-data length mismatches (#224, thanks to @LittleBeannie).
gt_ae_summary() now supports missing source notes and footnotes without passing NULL to gt::md() (#226, thanks to @LittleBeannie).
prepare_ae_specific() now preserves SOC and preferred-term row ordering when the data exceed the previous fixed ordering placeholder (#214, thanks to @ginnaram13).

The metalite_ae_adexsum example dataset has been expanded for adverse event forest plot workflows (#220, thanks to @lm3388).
Unused arguments and R CMD check warnings in gt_ae_summary() and prepare_ae_specific() have been removed (#232, thanks to @fukuhiro2023).
Package examples now use direct, reproducible metadata definitions based on forestly example data (#229, thanks to @LittleBeannie and @fukuhiro2023).

The adverse event vignettes and pkgdown site have been reorganized, with new articles for custom columns, filtering and sorting, and mock tables (#204, #231, thanks to @lm3388 and @LittleBeannie).
Added a new vignette for interactive AE listing tables and updated listing workflow documentation and pkgdown references for the new listing functions (#239, thanks to @LittleBeannie).
Added a new vignette demonstrating how one metadata object can generate multiple AE outputs (summary, specific, listing, and forest plot), and updated pkgdown article navigation for this workflow (#239, thanks to @LittleBeannie).

format_ae_specific() now has new arguments filter_method and filter_criteria to control displayed rows in a table, sort_order and sort_column to sort an output table, and hide_soc_stats to control display of statistics for SOC rows (#191, #192, #203thanks to @fukuhiro2023).
Add data/metalite_ae_adesxum.rda (#189).
Add event counts to avg_count() and extend_ae_specific_events() (#194).
Add empty_table() to return an empty table object when data has no population (#200).

Fix bug to correctly display the order of means of duration and means of event count in extend_ae_specific_events() and extend_ae_specific_duration()(#194, #199).
Fix bug to avoid an error when a treatment group has no observation to calculate event counts and duration in avg_event() and avg_duration() (#199).
Fix bug to avoid an error when there is no observation to summarize event counts and duration in avg_event(), avg_duration(), extend_ae_specific_events() and extend_ae_specific_duration() (#200).

Update fmt_est() to change display of missing values from a character string of “NA” to a blank in an output table (#194).
Update extend_ae_specific_inference() to pass additional arguments to rate_compare_sum() (#197).

tlf_ae_summary() now has a new argument title for a user-customized title (#133).
Add new functions: extend_ae_specific_subgroup(), prepare_ae_specific_subgroup(), format_ae_specific_subgroup(), tlf_ae_specific_subgroup(), extend_ae_summary_eaer(), format_ae_exp_adj() and tlf_ae_exp_adj() (#150, #161, #174, #180).
Add data/metalite_ae_adex.rda (#164).
Add new vignettes: vignette("ae-specific-subgroup") and vignette("exposure-adjusted-event-rate") (#167, #169).
Add System Organ Classes (SOC) information to outdata in prepare_ae_specific() (#186).

Fix bug to avoid warning messages when no comparison variables are requested in format_ae_specific() (#135).
Fix bug to align the row order of output data with the input one in avg_event() and avg_duration() (#136).
Fix bug to check missing grouping variable after a subset of input data in prepare_ae_specific() (#137).
Fix bug to display item if AE term has NA in prepare_ae_specific() (#166).
Fix bug to correctly assign treatment labels when a treatment variable has NA (#179).

Update GitHub Actions workflow (#131, #163, #181).
Add styler workflow (#134).
Add CRAN download badge (#140).
Remove dependencies on dplyr and tidyr from avg_event(), avg_duration() and fmt_val() (#136).
Change the default value of the title argument in tlf_ae_specific() (#138).
Remove R/n_subject.R and change to use metalite::n_subject() in prepare_ae_specific() (#144).
Race values for adsl and adae are converted to title case in meta_ae_exmple() (#158).
Organize files for utility functions (#159)
- Rename R/rtf_output.R to R/utility.R.
- Remove rate_compare_sum.R, R/to_mock.R and R/to_sentence.R.
- Move to_rate_compare_sum() to R/rate_compare.R, and move to_mock() and to_sentence() to R/utility.R.
Remove library calls from tests (#183).
Add R/outdata.R to control outdata object (#161).
Add an installation section to README.md (#177).
Improve style and formatting for vignettes and code (#158, #168).