This is a R project for creating demo EPIDEMIA forecasting reports using the epidemiar package. The final report presents a malaria forecasting report for 47 woredas in the Amhara region for the past 18 weeks through 8 weeks forecasted into the future (26 total weeks). Malaria is broken out by species: Plasmodium falciparum and mixed species, and also P. vivax. The report includes environmental and epidemiological surveillance data.

Demo is based off a real implementation for forecasting malaria in the Amhara region of Ethiopia, however surveillance data in this demo have been simulated. These data are artificial and should not be used for research of public health purposes. These data are only for this demonstration of what a disease report could look like.

Open epidemiar_demo.RProj, and the main script to open and run is run_epidemiar_demo.R. There is another script create_model_demo.R that will only create the model (regression object) which can be used in subsequent runs of run_epidemiar_demo.R that will decrease processing time.

See walkthrough and other documentation in this project under the documentation folder, specifically walkthrough.pdf.

Many of the customized scripts are based around issues in the real situation which do not exist in the simulated data, but are retained in the code here for demonstration on how it could work (e.g. data cleaning functions inside data corral functions for collating surveillance data).

This demo is to be used alongside the package epidemiar version 2.0.0 or higher, which you can find here: https://github.com/EcoGRAPH/epidemiar.