R programs for Stat 534

• lnlbin.txt Example, using binomial model, of maximizing a likelihood, estimating the hessian, and numerically estimating the variance.
• lnlmulti.txt Example, using multinomial model, of maximizing a likelihood with more than one parameter, estimating the hessian, numerically estimating the variance, and calculating the profile likelihood.
• lnlmulti2.txt A couple of tricks to avoid evaluating lnL for nonsense parameter values (e.g. p < 0)
• lnmodels.txt my lnL functions for M0, Mt, and Mb models.
• simmulti.txt Functions to simulate capture history data from M0, Mt, and Mb. Also, functions to compute sufficient statistics for each model from a capture history.
• matrix.r Example of deterministic matrix model calculations, including sensitivity matrix
• markov.r Function to calculate stochastic log lambda and its variance given an environmental transition matrix and set of population transition matrices