Changelog
EpiReport 1.0.0 (2020-12-18)
CRAN release: 2021-01-06
BUG FIXES
- Fixing the issue of mix between zero reporting and missing reports in the Trend and Season plots.
NEW FEATURES
- New and more recent default dataset: DENGUE2019
- Allowing extra stratification for Table 1 on disease stage (i.e. HEPB and HEPC diseases)
- Allowing automatic landscape mode for Table 1 when extra stratification on acute vs. chronic disease is required
- Trend and Season plots are now followed by the list of countries reporting consistently over the study period and included in the plot.
- Making the function
shapeECDCFlexTable()more generic and adaptable to any kind of table. Adding an option for having the last row in bold. -
EpiReport::MSCodereference table now have an extra column to allow the article “the” for some country name (e.g. The United Kingdom, The Netherlands) - Adding the ECDC color palette with the new function
EcdcColors()
NEW FUNCTIONS
- In order to allow the user to produce additional outputs in the report and following the ECDC guidelines for presentation of surveillance data, additional generic functions are now available:
-
plotBar(): plot bar graph -
plotBarGrouped(): plot grouped bar graph -
plotBarH(): plot horizontal bar graph -
plotBarGroupedH(): plot grouped horizontal bar graph -
plotPie(): plot pie chart -
plotTS(): plot time series -
plotTSGrouped(): plot grouped time series
-
EcdcColors()body_replace_gg_at_bkm()
BEHAVIORAL CHANGE
- Reordering of the outputs in the report.
- Renaming the default report name with a shorten name.
- Because of the updated version of the
officerandflextablepackage, existing outputs were not replaced when the report would be re-run. Each output is now correctly replaced using new functions from these packages. WARNING: you may have to update your bookmarks according to these new functions requirements.
MINOR IMPROVEMENTS
- Bookmarks names have been simplified.
- Cleaning the Template accordingly and dropping bookmarks not used
- Improving error messages (e.g. provide clear error message of the study period is incomplete).
- We now have two numbering: one for Figures and on for Tables.
- Numbering of maps in the report is now improved and take into account multiple maps.
- The country “Czech Republic” is now “Czechia” in
EpiReport::MSCodereference table. - Style of outputs caption is improved in the template provided in the package.
DOCUMENTATION
- Vignettes have been updated with the list of bookmarks required in the Microsoft Word template.
DEPRECATED
- The functions
plotAgeGender()andplotAge()are still available in the package but they are discouraged. Instead, the user is encouraged to use the functionsplotBarGrouped()andplotBar()respectively.