| addlabels.barplot | add labels to a barplot |
| AIC.mixstock.est | commands for mixed stock analysis estimates |
| as.mcmc.bugs | convert from R2WinBUGS to CODA format |
| as.mixstock.data | class for marker data from sources and mixed stocks |
| as.mixstock.est.bugs | Convert BUGS or CODA objects to mixstock estimate object |
| blockdiag | Block diagonal matrices |
| bolten98 | Loggerhead turtle data from Bolten 1998 |
| BUGS.out | generate MCMC output in BUGS format |
| calc.GR | Run chains and calculate Gelman and Rubin diagnostics for... |
| calc.mult.GR | Calculate Gelman and Rubin diagnostic multiple times for... |
| calc.RL | Use Raftery and Lewis diagnostics to calculate MCMC chain... |
| cml | Mixed stock analysis by conditional maximum likelihood |
| coef.toptim | minimal structure for optim fits |
| expand.bugs.data | convert data to BUGS input format |
| genboot | Generate bootstrap estimates of mixed stock analyses |
| get.bot | Masuda-Pella interchange functions |
| gibbsC | Run mixed stock analysis Gibbs sampler, in C |
| gibbsmat | Plot Gibbs sampler output |
| hwdiag.check | check Heidelberger and Welch diagnostic results |
| lahanas98 | Green turtle data from Lahanas et al. 1998 |
| loglik2.C | likelihood calculation, in C |
| markfreq.condense | condense marker frequency list |
| marknames | Extract/assign names from mixed stock data |
| mcmc.chainlength.est | Estimate appropriate chain length for mixed stock analysis by... |
| mixstock.boot | Bootstrap samples of mixed stock analysis data |
| mixstock.est | construct (or print) a mixed stock analysis estimate object |
| mm.wbugs | Run many-to-many model via WinBUGS (or JAGS) |
| mysum | summaries of MCMC output |
| nmark | Set and query mixed stock parameters |
| normcols | scale columns to frequencies |
| numderiv | take the numeric derivative of a function |
| packval | Pack and unpack contribution and marker frequencies |
| p.bayes | Empirical Bayes estimate of prior strength for source marker... |
| plot.mixstock.est | plot mixed stock analysis estimates |
| pm.wbugs | Run Pella-Masuda model via WinBUGS |
| q.to.p | Real-to-multifrequency transformation |
| rdirichlet | Dirichlet deviates |
| runsims | Run mixed stock simulations |
| simex | A small sample mixed stock analysis data set |
| simmixstock0 | Simulate a sample from sources and mixed stock |
| simmixstock1 | Simulate marker frequencies and distributions in a mixed... |
| simmixstock2 | Simulate multiple mixed stocks |
| sourcesize.wbugs | Run hierarchical model with via WinBUGS |
| startvec0 | Produce (raw) starting vector of parameters for mixed stock... |
| tmcmc | Mixed stock analysis by Markov Chain Monte Carlo |
| uml | Mixed stock analysis by unconditional maximum likelihood |
| uml.lik | Likelihoods and gradients of stock analysis models |
