Zika virus forecast
###################### CONTACT INFO Kelly Schroeder kschroed@bu.edu 307-399-5248
Emily Chua ejchua@bu.edu 617-840-6331
Stephen Caron caronst@bu.edu 781-264-4383
Andrew Pineda ajpineda@bu.edu
Andre Schettino schettin@bu.edu 617-784-1217
###################### DATA -Buzzfeed Repo: -Colombia's Zika data updated weekly from 2016-01-09 to 2016-02-20; stored in the table "total" within get_data.R
-Google Trends:
-Data updated daily and stored in "zika_trends"" within
get_googletrends_data.R
-NOTE: Did not end up using this data
CRON SETTINGS -All updates emailed to zikaforecast@gmail.com
###################### ORDER OF R SCRIPTS
- get_data.R -sets the working directory -scrapes Github for Buzzfeed Colombia Zika data -divides up Colombia by department -saves all objects into "zika.RData"
- model_test_new.R -fits the model to the 7 weeks of available data using a Random Walk model -includes a departmental effect -visualizes the model and data time series with confidence estimates -visualizes the MCMC diagnostics and saves the MCMC output
- initial_forecast.R -generates an initial ensemble forecast for the 7 weeks + out through weeks 8 to 20 -uses 500 MC simulations -holds out a randomly-chosen initial forecast as our "pseudo-data"
- sensitivity_analysis.R -performs the sensitivity and uncertainty analyses
- EnKF.R -uses an Ensemble Kalman Filter to iteratively update the analysis and forecast steps on a weekly basis