Extended Batch Marking Models
batchLL function provides the batch marking log-likelihood
batchLogit function
Log-likelihood function for marked model.
Marked model only.
Log-likelihood function for combined model.
Combined Marked and Unmarked models.
batchUnmark2Viterbi function provides a wrapper for the batchUnmarkVit...
batchUnmarkHmmLL function provides the unmarked function to be optimiz...
batchUnmarkViterbi function provides the implementation of the Viterbi...
Convolution of Poisson and Binomial for Batch
initial probability function
extBatchMarking: Extended Batch Marking Models
Transition State Probability 'gamma_gt' computes the transition probab...
Plot Method for batchMarkUnmarkOptim Objects
Plot Method for batchMarkUnmarkOptim Objects
Print Method for batchMarkOptim Objects
Print Method for batchMarkUnmarkOptim Objects
State-dependent probability function
A system for batch-marking data analysis to estimate survival probabilities, capture probabilities, and enumerate the population abundance for both marked and unmarked individuals. The estimation of only marked individuals can be achieved through the batchMarkOptim() function. Similarly, the combined marked and unmarked can be achieved through the batchMarkUnmarkOptim() function. The algorithm was also implemented for the hidden Markov model encapsulated in batchMarkUnmarkOptim() to estimate the abundance of both marked and unmarked individuals in the population. The package is based on the paper: "Hidden Markov Models for Extended Batch Data" of Cowen et al. (2017) <doi:10.1111/biom.12701>.
Useful links