Epidemiological Report

Drafting an epidemiological report in 'Microsoft Word' format for a given disease, similar to the Annual Epidemiological Reports published by the European Centre for Disease Prevention and Control. Through standalone functions, it is specifically designed to generate each disease specific output presented in these reports and includes: - Table with the distribution of cases by Member State over the last five years; - Seasonality plot with the distribution of cases at the European Union / European Economic Area level, by month, over the past five years; - Trend plot with the trend and number of cases at the European Union / European Economic Area level, by month, over the past five years; - Age and gender bar graph with the distribution of cases at the European Union / European Economic Area level. Two types of datasets can be used: - The default dataset of salmonella 2012-2016 data; - Any dataset specified as described in the vignette.


European Centre for Disease Prevention and Control (ECDC)

Description

The EpiReport package allows the user to draft an epidemiological report similar to the ECDC Annual Epidemiological Reports (see https://ecdc.europa.eu/en/annual-epidemiological-reports) in Microsoft Word format for a given disease getAER().

Through standalone functions, the package is specifically designed to generate each disease-specific output presented in these reports.

The package includes:

  • Table with the distribution of cases by Member State over the last five years getTableByMS()
  • Seasonal plot with the distribution of cases at EU/EEA level, by month, over the past five years getSeason()
  • Trend plot with the trend and number of cases at EU/EEA level, by month, over the past five years getTrend()
  • Age and gender bar graph with the distribution of cases at EU/EEA level getAgeGender()

Two types of datasets can be used:

  • The default dataset included in the EpiReport package which includes Salmonellosis data for 2012-2016: EpiReport::SALM2016;
  • Any dataset specified as described in the package vignette.

News

Reference manual

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install.packages("EpiReport")

0.1.0 by Lore Merdrignac, 4 months ago


https://ecdc.europa.eu/en/annual-epidemiological-reports


Browse source code at https://github.com/cran/EpiReport


Authors: Lore Merdrignac [aut, ctr, cre] (Author of the package and original code) , Tommi Karki [aut, fnd] , Esther Kissling [aut, ctr] , Joana Gomes Dias [aut, fnd] (Project manager)


Documentation:   PDF Manual  


EUPL license


Imports officer, flextable, zoo, png, dplyr, tidyr, ggplot2, extrafont, graphics, utils, knitr, rmarkdown


See at CRAN