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Workshop on CMR
Software for Capture-Mark-Recapture
Schedule
1- Introduction to R
Basic of the R language
Reading and manipulating data
Review Exercises
Statistical and random number functions
Writing user-defined functions
10-Closed capture
General Discussion
Huggins conditional models for individual covariates
Mixture models
RMark vs MARK comparison
Non-mixture (non-heterogeneity) models
Review
11-Open capture models for recruitment and abundance
General discussion
Jolly-Seber
POPAN approach
Pradel temporal symmetry
Review
12-Robust design
General discussion
Models for recruitment estimation
Review exercises
Temporary emigration models
13- Simulation using R and RMark
Review exercises
14- Multi-state models
Review exercises
14- Wrap up, discussion, what next
2- Introduction to CMR
Basics of CMR modeling
Design of CMR studies
Goals of CMR
Review Exercises
Types of CMR data
3-Introduction to MARK and RMark
Comparison of the programs
Formatting data to run in MARK or RMark
Getting and installing the programs
Review
4- Programs MARK and RMark details
Basics of creating a model in MARK and RMark
Creating and running models from the MARK GUI (Dipper example)
Creating MARK models using the scripting approach in RMark (Dipper example)
Review exercises
5- Age and cohort structure
Cohort based analysis
General discussion
Known age releases each occasion
Other situations
Review exercises
6-Model fit and multi-model inference
General ideas
Methods for assessing fit
Multi-model inference
Review
7- Covariates and prediction
General introduction
Individual covariates
Review
Time-specific covariates
8- Live recapture, dead recovery and live-dead models
CJS review
Dead recovery analysis
MARK implementation of dead recovery
Overview
Review
RMark implementation
Exercises
General Discussion and Overview
Joint live-dead analysis
9- Known fates and nest success analysis
General discussion
Implementation in RMark and MARK
Review exercises
Software needed for course
Summary/ Review exercises
Members only
American Oystercatcher
Lobster
Nest
Workshop on CMR
14- Wrap up, discussion, what next
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