I am going to try to keep this post updated with resources that are helpful when learning occupancy modelling.
Computer Applications
1. PRESENCE
A standalone program created by Darryl Mackenzie and Jim Hines, currently maintained by Jim Hines, Computer Specialist at the USGS Patuxent Wildlife Research Center.
2. MARK
A program created and maintained by Gary White, Professor Emeritus in the Department of Fish, Wildlife and Conservation Biology at
Colorado State University.
3. RPresence
Provide an R interface for running some of the occupancy models available in Program PRESENCE, plus some additional helpful routines.
4. rmark
An R package that mimics program MARK.
5. unmarked
An R packaged created by Ian Fiske and currently maintained by Andy Royle, Research Statistician at the USGS Patuxent Wildlife Research Center.
Workshops
Using R to Build and Compare Statistical Models
This Google Site hosts a workshop presented by Michael Conroy, a Senior Research Scientist at the University of Georgia and retired member of the USGS Cooperative Fish and Wildlife Unit. Offers lectures and exercises on ecological statistics, occupancy modelling, and capture-recapture analysis.
Occupancy, Abundance, and Species Richness
This Google Site hosts a workshop presented by Marc Kéry, Richard Chandler, and Andy Royle of the USGS Patuxent Wildlife Research Center and Swiss Ornithological Institute. Workshop goals are to provide overview of hierarchical models for abundance, occurrence, and communities, while synthesizing developments in the field.
Using R to Build and Compare Statistical Models
This Google Site hosts a workshop presented by Michael Conroy, a Senior Research Scientist at the University of Georgia and retired member of the USGS Cooperative Fish and Wildlife Unit. Offers lectures and exercises on ecological statistics, occupancy modelling, and capture-recapture analysis.
Occupancy, Abundance, and Species Richness
This Google Site hosts a workshop presented by Marc Kéry, Richard Chandler, and Andy Royle of the USGS Patuxent Wildlife Research Center and Swiss Ornithological Institute. Workshop goals are to provide overview of hierarchical models for abundance, occurrence, and communities, while synthesizing developments in the field.
Books/Book Chapters
Program MARK – a ‘gentle introduction’. Chapter 21.
http://www.phidot.org/software/mark/docs/book/pdf/chap21.pdf
Program MARK – a ‘gentle introduction’. Chapter 21.
http://www.phidot.org/software/mark/docs/book/pdf/chap21.pdf
Websites
Occupancy Models to Study Wildlife. USGS Fact Sheet 2005-3096
https://pubs.er.usgs.gov/publication/fs20053096
Occupancy Models to Study Wildlife. USGS Fact Sheet 2005-3096
https://pubs.er.usgs.gov/publication/fs20053096
University Course Files
WILD 8390: Estimation of Parameters of Fish and Wildlife Populations
University of Georgia
https://sites.google.com/site/wild8390
FW 544: Quantitative Decision Analysis for Fish and Wildlife Management
Oregon State University
https://sites.google.com/site/fw544quantdecisanalfwm
WFCON 697: Hierarchical Models of Animal Occurence, Abundance, and Survival
University of Massachusetts at Amherst
https://sites.google.com/site/hierarchicalmodelingcourse
WFSC 578: Wildlife Population Dynamics
The University of Arizona
https://cals.arizona.edu/classes/wfsc578/
AEC 501: Ornithology
North Carolina State University
https://projects.ncsu.edu/cals/course/zo501/2016%20Sampling%20Lab/IntroR.and.Occupancy.pdf Lecture: Introduction to Occupancy Models
https://projects.ncsu.edu/cals/course/zo501/.../IntroR.and.Occupancy.Key.pptx Lecture Key and Notes (Powerpoint Direct Download)
WILD 8390: Estimation of Parameters of Fish and Wildlife Populations
University of Georgia
https://sites.google.com/site/wild8390
FW 544: Quantitative Decision Analysis for Fish and Wildlife Management
Oregon State University
https://sites.google.com/site/fw544quantdecisanalfwm
WFCON 697: Hierarchical Models of Animal Occurence, Abundance, and Survival
University of Massachusetts at Amherst
https://sites.google.com/site/hierarchicalmodelingcourse
WFSC 578: Wildlife Population Dynamics
The University of Arizona
https://cals.arizona.edu/classes/wfsc578/
AEC 501: Ornithology
North Carolina State University
https://projects.ncsu.edu/cals/course/zo501/2016%20Sampling%20Lab/IntroR.and.Occupancy.pdf Lecture: Introduction to Occupancy Models
https://projects.ncsu.edu/cals/course/zo501/.../IntroR.and.Occupancy.Key.pptx Lecture Key and Notes (Powerpoint Direct Download)
Discussion Forums
unmarked Google Group
Applied Hierarchical Modelling Google Group
Phidot forum
unmarked Google Group
Applied Hierarchical Modelling Google Group
Phidot forum