Ecological examples

Nearly all examples from the “AHM” book, Applied Hierarchical Modeling in Ecology: Analysis of distribution, abundance and species richness in R and BUGS. Volume I. by Marc Kéry and J. Andrew Royle (2015. Academic Press), have been converted to nimble from JAGS and can be found here.

Here are some links to specific examples organized by model type (See the book for more details):

• Linear regression with missing values (5.5.1 - 5.5.3)
• Linear models (5.6)
• Generalized Linear Models (5.8 - 5.12)
• Generalized Linear Mixed Models (5.13, 5.14)
• N-mixture (abundance) models (6.3, 6.4)
• Zero-inflated N-mixture model (6.11)
• Multinomial N-mixture model (7.6)
• Spatially stratified capture-recapture (7.8)
• Distance sampling (8.3)
• Hierarchical distance sampling (8.5)
• More advanced hierarchical distance sampling (9.2 - 9.8)
• Basic occupancy models (10.3, 10.4, 10.6)
• More advanced occupancy models (10.3, 10.4, 10.6, 10.10 - 10.14)
• Community (multi-species) models (11.3, 11.5 - 11.7, 11.10)