Epidemiological Report

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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