A B C D E G H L M N P Q R S T U W
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 | commands for mixed stock analysis estimates |
as.mixstock.est.bugs | Convert BUGS or CODA objects to mixstock estimate object |
as.mixstock.est.mcmc | Convert BUGS or CODA objects to mixstock estimate object |
blockdiag | Block diagonal matrices |
bolten98 | Loggerhead turtle data from Bolten 1998 |
bolten98raw | Loggerhead turtle data from Bolten 1998 |
boxplot.mixstock.est | commands for mixed stock analysis estimates |
BUGS.out | generate MCMC output in BUGS format |
calc.GR | Run chains and calculate Gelman and Rubin diagnostics for mixed stock analyses |
calc.mult.GR | Calculate Gelman and Rubin diagnostic multiple times for mixed stock analyses |
calc.mult.RL | Use Raftery and Lewis diagnostics to calculate MCMC chain lengths |
calc.RL.0 | Use Raftery and Lewis diagnostics to calculate MCMC chain lengths |
cml | Mixed stock analysis by conditional maximum likelihood |
cml.grad | Likelihoods and gradients of stock analysis models |
cml.lik | Likelihoods and gradients of stock analysis models |
coef.mixstock.est | commands for mixed stock analysis estimates |
coef.toptim | minimal structure for optim fits |
confint.mixstock.est | commands for mixed stock analysis estimates |
dcmat.a | Likelihoods and gradients of stock analysis models |
expand.bugs.data | convert data to BUGS input format |
genboot | Generate bootstrap estimates of mixed stock analyses |
get.bot | Masuda-Pella interchange functions |
get.bse | Masuda-Pella interchange functions |
get.ctl | Masuda-Pella interchange functions |
get.frq | Masuda-Pella interchange functions |
get.mix | Masuda-Pella interchange functions |
get.mp.input | Masuda-Pella interchange functions |
gibbs | Mixed stock analysis by Markov Chain Monte Carlo |
gibbsC | Run mixed stock analysis Gibbs sampler, in C |
gibbsmat | Plot Gibbs sampler output |
gibbsrpt | Plot Gibbs sampler output |
hist.mixstock.est | commands for mixed stock analysis estimates |
hwdiag.check | check Heidelberger and Welch diagnostic results |
label.mixstock.data | Extract/assign names from mixed stock data |
lahanas98 | Green turtle data from Lahanas et al. 1998 |
lahanas98raw | Green turtle data from Lahanas et al. 1998 |
locnames | Extract/assign names from mixed stock data |
logLik.mixstock.est | commands for mixed stock analysis estimates |
logLik.toptim | minimal structure for optim fits |
loglik2.C | likelihood calculation, in C |
lsolve | Produce (raw) starting vector of parameters for mixed stock analysis |
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 MCMC |
mixnames | Extract/assign names from mixed stock data |
mixstock.boot | Bootstrap samples of mixed stock analysis data |
mixstock.data | class for marker data from sources and mixed stocks |
mixstock.dimnames | Extract/assign names from mixed stock data |
mixstock.est | construct (or print) a mixed stock analysis estimate object |
mm.wbugs | Run many-to-many model via WinBUGS |
mysum | summaries of MCMC output |
mysumvec | summaries of MCMC output |
nmark | Set and query mixed stock parameters |
nmix | Set and query mixed stock parameters |
normcols | scale columns to frequencies |
nsource | Set and query mixed stock parameters |
numderiv | take the numeric derivative of a function |
p.bayes | Empirical Bayes estimate of prior strength for source marker frequencies |
p.to.q | Real-to-multifrequency transformation |
packval | Pack and unpack contribution and marker frequencies |
packval2 | Pack and unpack contribution and marker frequencies |
plot.mixstock.data | class for marker data from sources and mixed stocks |
plot.mixstock.est | plot mixed stock analysis estimates |
plotvar | Plot Gibbs sampler output |
pm.wbugs | Run Pella-Masuda model via WinBUGS |
print.mixstock.data | class for marker data from sources and mixed stocks |
print.mixstock.est | construct (or print) a mixed stock analysis estimate object |
put.bse | Masuda-Pella interchange functions |
put.ctl | Masuda-Pella interchange functions |
put.mix | Masuda-Pella interchange functions |
put.mp | Masuda-Pella interchange functions |
q.to.p | Real-to-multifrequency transformation |
rdirichlet | Dirichlet deviates |
RL.burn | Use Raftery and Lewis diagnostics to calculate MCMC chain lengths |
RL.max | Use Raftery and Lewis diagnostics to calculate MCMC chain lengths |
runsims | Run mixed stock simulations |
sim.mark.freq | Simulate marker frequencies and distributions in a mixed stock |
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 stock |
simmixstock2 | Simulate multiple mixed stocks |
sourcenames | Extract/assign names from mixed stock data |
sourcesize.wbugs | Run hierarchical model with via WinBUGS |
startvec | Produce (raw) starting vector of parameters for mixed stock analysis |
startvec0 | Produce (raw) starting vector of parameters for mixed stock analysis |
summary.mixstock.est | commands for mixed stock analysis estimates |
tmcmc | Mixed stock analysis by Markov Chain Monte Carlo |
uml | Mixed stock analysis by unconditional maximum likelihood |
uml.grad | Likelihoods and gradients of stock analysis models |
uml.lik | Likelihoods and gradients of stock analysis models |
unpackval | Pack and unpack contribution and marker frequencies |
unpackval2 | Pack and unpack contribution and marker frequencies |
write.TO.bugscode | Run many-to-many model via WinBUGS |