# Epidemiological Report

## Documentation for package ‘EpiReport’ version 1.0.4

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

AERparams | Dataset describing the parameters for the epidemiological report production
body_replace_gg_at_bkm | Replace a plot at a bookmark location
cleanECDCTable | Cleaning the final table
cleanMeasureCode | Clean the MeasureCode variable
DENGUE2019 | Dataset including Dengue data for 2015-2019
EcdcColors | Colour palettes following the March 2018 ECDC guidelines for presentation of surveillance data
filterDisease | Filter disease parameters
getAER | Get full disease-specific epidemiological report
getAgeGender | Get disease-specific age and gender bar graph
getMap | Get disease-specific map: distribution of cases by Member State
getSeason | Get disease-specific seasonality graph: distribution of cases by month
getTableByMS | Get disease-specific table: distribution of cases by Member State (GeoCode)
getTemplate | Get epidemiological report (empty) template
getTrend | Get disease-specific trend plot: trend and number of cases by month
includeMap | Including PNG map in the 'Microsoft Word' template
MSCode | Dataset correspondence table between country names and country code
orderQuasinum | Order 'quasinumerical' categorical vectors (increasing order)
plotAge | Age bar graph
plotAgeGender | Age and Gender bar graph
plotBar | Bar graph
plotBarGrouped | Grouped bar graph
plotBarGroupedH | Horizontal grouped bar graph
plotBarH | Horizontal bar graph
plotPie | Pie chart
plotSeasonality | Seasonality line graph
plotTS | Time series plot
plotTS12MAvg | Time series with 12-month moving average
plotTSGrouped | Multiple time series plot
previewMap | Previewing the PNG map
SALM2016 | Dataset including Salmonellosis data for 2012-2016
shapeECDCFlexTable | Shaping the final table (layout, title, color, font)
toCapTitle | Capitalise first letter