as.evoTS.multi.BW.acceldecel.fit |
Class for fit to evolutionary sequence (time-series) models |
as.evoTS.multi.BW.fit |
Class for fit to evolutionary sequence (time-series) models |
as.evoTS.multi.OU.fit |
Class for fit to evolutionary sequence (time-series) models |
as.evoTS.multi.URW.fit |
Class for fit to evolutionary sequence (time-series) models |
as.evoTS.multi.URW.shift.fit |
Class for fit to evolutionary sequence (time-series) models |
as.evoTSfit.OUBM |
Class for fit to evolutionary sequence (time-series) models |
diameter_S.yellowstonensis |
Evolutionary sequence (time-series) of phenotypic change in diameter in the lineage Stephanodiscus yellowstonensis |
fit.all.univariate |
Fit all univariate models to an evolutionary sequence (time-series). |
fit.mode.shift |
Fit two models to two separate segments to an evolutionary sequence (time-series). |
fit.multivariate.OU |
Fit predefined multivariate Ornstein-Uhlenbeck models to multivariate evolutionary sequence (time-series) data. |
fit.multivariate.OU.user.defined |
Fit user-defined multivariate Ornstein-Uhlenbeck models to multivariate evolutionary sequence (time-series) data. |
fit.multivariate.URW |
Fit multivariate Unbiased Random Walk models to multivariate evolutionary sequence (time-series) data. |
fit.multivariate.URW.shift |
Fit separate multivariate Unbiased Random Walk models to two different segments of a multivariate evolutionary sequence (time-series). |
logL.joint.accel.decel.single.R |
Log-likelihoods for evolutionary models |
logL.joint.accel.decel.single.R.zero.corr |
Log-likelihoods for evolutionary models |
logL.joint.accel_decel |
Log-likelihoods for evolutionary models |
logL.joint.multi.OUOU |
Log-likelihoods for evolutionary models |
logL.joint.multi.OUOU.user |
Log-likelihoods for evolutionary models |
logL.joint.multi.R |
Log-likelihoods for evolutionary models |
logL.joint.OU.BM |
Log-likelihoods for evolutionary models |
logL.joint.single.R |
Log-likelihoods for evolutionary models |
logL.joint.single.R.zero.corr |
Log-likelihoods for evolutionary models |
logL.joint.Stasis.OU |
Log-likelihoods for evolutionary models |
logL.joint.URW.URW |
Log-likelihoods for evolutionary models |
loglik.surface.accel |
Calculate the log-likelihood surface for a part of parameter space |
loglik.surface.decel |
Calculate the log-likelihood surface for a part of parameter space |
loglik.surface.GRW |
Calculate the log-likelihood surface for a part of parameter space |
loglik.surface.OU |
Calculate the log-likelihood surface for a part of parameter space |
loglik.surface.OUBM |
Calculate the log-likelihood surface for a part of parameter space |
loglik.surface.stasis |
Calculate the log-likelihood surface for a part of parameter space |
loglik.surface.URW |
Calculate the log-likelihood surface for a part of parameter space |
make.multivar.evoTS |
Makes a multivariate data set of |
opt.accel.single.R |
Fit multivariate Unbiased Random Walk with increasing (exponential accelerating) rate of change through time. |
opt.accel.single.R.zero.corr |
Fit multivariate Unbiased Random Walk model with uncorrelated trait changes and with increasing (exponential accelerating) rate of change through time. |
opt.decel.single.R |
Fit multivariate Unbiased Random Walk with decreasing (exponential decaying) rate of change through time. |
opt.decel.single.R.zero.corr |
Fit multivariate Unbiased Random Walk model with uncorrelated trait changes and with decreasing (exponential decaying) rate of change through time. |
opt.joint.accel |
Fit an Unbiased Random Walk with an accelerating rate of change through time. |
opt.joint.decel |
Fit an Unbiased Random Walk with an decelerating rate of change through time. |
opt.joint.OUBM |
Fit an Ornstein-Uhlenbeck model with an optimum that evolves according to a Unbiased Random Walk. |
opt.joint.URW.Stasis |
Optimization and log-likelihoods for pairs of models. |
opt.single.R |
Fit multivariate Unbiased Random Walk model. |
opt.single.R.zero.corr |
Fit multivariate Unbiased Random Walk model with uncorrelated trait changes. |
plotevoTS |
Plot a paleoTS object |
plotevoTS.multivariate |
Plots multivariate evolutionary sequence (time-series) data set |
ribs_S.yellowstonensis |
Evolutionary sequence (time-series) of phenotypic change in the number of ribs in the lineage Stephanodiscus yellowstonensis |
sim.accel.decel |
Simulate an Unbiased Random Walk with an accelerating or decelerating rate of change through time. |
sim.multi.OU |
Simulate multivariate Ornstein-Uhlenbeck evolutionary sequence data sets |
sim.multi.URW |
Simulate multivariate evolutionary sequence data that evolve according to an Unbiased Random Walk |
sim.OUBM |
Simulate an Ornstein-Uhlenbeck process with optimum changing according to an unbiased random walk |