Signal Detection Analysis
Aggregate filtered final Atlas export
Build algo object
Clean the Atlas export dataframe
Filter clean Atlas export
Import ECDC Atlas export file (csv)
Plot the Signal Detection time series
Run the EpiSignalDectection 'shiny' application
Run the EpiSignalDetection report (HTML markdown)
Build sts object
Compute the study period
Exploring time series for signal detection. It is specifically designed to detect possible outbreaks using infectious disease surveillance data at the European Union / European Economic Area or country level. Automatic detection tools used are presented in the paper "Monitoring count time series in R: aberration detection in public health surveillance", by Salmon (2016) <doi:10.18637/jss.v070.i10>. The package includes: - Signal Detection tool, an interactive 'shiny' application in which the user can import external data and perform basic signal detection analyses; - An automated report in HTML format, presenting the results of the time series analysis in tables and graphs. This report can also be stratified by population characteristics (see 'Population' variable). This project was funded by the European Centre for Disease Prevention and Control.