Files for the analysis of GPS badger movement in relation to the Thesis by Jessica Furber.
Files include:
- Initial modelling strategies (Chapter 3)
- Conversion of coordinates from Latitude/Longitude to Easting/Northing (and back) (Chapter 4) - R coding
- Code to estimate metastable states (Chapter 5), including:
- Interpolation of coordinates for correct format of data for extended dynamic mode decomposition - Matlab
- Generation of metastable states via extended dynamic mode decomposition (EDMD) - Python
- Code to calculate the model (Chapter 6), including:
- Estimation of diffusion and statistical analysis - Python, Matlab, and R
- Creation of KDE and GMM potential - Python
- Estimation of mountain passes - Python
- Comparison of potentials - Python
- Simulation (with Attraction and Repuslion (AR) and without) - Python
You will also require to download the folder d3s from https://github.com/sklus/d3s in order to use the EDMD.py file.
The GPS tracking data of badger movements, collected from Cornwall, are lodged on Movebank (www.movebank.org; Movebank Project 158275131). For the GPS tracking data of badger movements, collected from Woodchester, please contact data access at APHA on badgerdata@apha.gov.uk. The GPS tracking data of badger movements, collected from Northern Ireland, are lodged on Movebank (www.movebank.org; Movebank Project 5019193945).