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).
Bug fixes
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).
Improvements
- 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).
Documentation
- 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).
New features
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).
Bug fixes
- 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).
Improvements
- 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).
New features
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).
Bug fixes
- 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).
Improvements
- 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).
- Updated the
DESCRIPTION file to reformat the
reference.
- Uncommented the previously commented code example.
- Initial submission to CRAN.
- Added a
NEWS.md file to track changes to the
package.