R Code for mark-recapture analysis

Documentation for package ‘marked’ version 1.0.1

cjs	Fitting function for CJS models
cjs.lnl	Likelihood function for Cormack-Jolly-Seber model
create.dm	Creates a design matrix for a parameter
create.dmdf	Creates a dataframe with all the design data for a particular parameter in a crm model
crm	Capture-recapture model fitting function
js	Fitting function for Jolly-Seber model using Schwarz-Arnason POPAN formulation
js.lnl	Likelihood function for Jolly-Seber model using Schwarz-Arnason POPAN formulation
make.design.data	Create design dataframes for MARK model specification
process.ch	Process release-recapture history data
process.data	Process encounter history dataframe for MARK analysis
setup.model	Defines model specific parameters (internal use)
setup.parameters	Setup parameter structure specific to model (internal use)
valid.parameters	Determine validity of parameters for a model (internal use)