Codes and data for the article 'Early warning signal for river-borne diseases with almost no data'

Codes and data for the paper "Early warning signal for river-borne diseases with almost no data" in Methods in Ecology and Evolution.

This collection includes data on the prevalence of river-borne diseases and related environmental variables.
The codes are for extracting the tree structure of the river from the map and using the extended HMM model to predict the presence of contaminated samples in each part of the river.

The dataset contains the whilring disease test results of about 113 locations in the Oldman River collected in 2017 and 2018. The dataset additionally includes several environmental variables measured at 164,985 pixels of size 200m x 200m in the Oldman River. The dataset was collected and preprocessed by Alberta Environment and Parks (AEP), with contributions from Alicia Kennedy, Laurie Gallagher, Chad Sherburne, James Clayton, and Marie Veillard. The dataset is being shared with the permission of AEP.