| dynr-package | Dynamic Models with Regime-Switching |
| $-method | The dynrCook Class |
| $-method | The dynrModel Class |
| $-method | The dynrRecipe Class |
| $<--method | The dynrModel Class |
| autoplot.dynrCook | The ggplot of the smoothed state estimates and the most likely regimes |
| autoplot.dynrTaste | The ggplot of the outliers estimates. |
| coef.dynrCook | Extract fitted parameters from a dynrCook Object |
| coef.dynrModel | Extract fitted parameters from a dynrCook Object |
| coef<- | Extract fitted parameters from a dynrCook Object |
| coef<-.dynrModel | Extract fitted parameters from a dynrCook Object |
| confint.dynrCook | Confidence Intervals for Model Parameters |
| deviance.dynrCook | Extract the log likelihood from a dynrCook Object |
| diag | Create a diagonal matrix from a character vector |
| diag-method | Create a diagonal matrix from a character vector |
| diag.character | Create a diagonal matrix from a character vector |
| dynr | Dynamic Models with Regime-Switching |
| dynr.config | Check that dynr in configured properly |
| dynr.cook | Cook a dynr model to estimate its free parameters |
| dynr.data | Create a list of data for parameter estimation (cooking dynr) using 'dynr.cook' |
| dynr.flowField | A Function to plot the flow or velocity field for a one or two dimensional autonomous ODE system from the phaseR package written by Michael J. Grayling. |
| dynr.ggplot | The ggplot of the smoothed state estimates and the most likely regimes |
| dynr.ldl | LDL Decomposition for Matrices |
| dynr.mi | Multiple Imputation of dynrModel objects |
| dynr.model | Create a dynrModel object for parameter estimation (cooking dynr) using 'dynr.cook' |
| dynr.plotFreq | Plot of the estimated frequencies of the regimes across all individuals and time points based on their smoothed regime probabilities |
| dynr.taste | Detect outliers in state space models. |
| dynr.taste2 | Re-fit state-space model using the estimated outliers. |
| dynr.trajectory | A Function to perform numerical integration of the chosen ODE system, for a user-specified set of initial conditions. Plots the resulting solution(s) in the phase plane. This function from the phaseR package written by Michael J. Grayling. |
| dynr.version | Current Version String |
| dynrCook-class | The dynrCook Class |
| dynrDebug-class | The dynrCook Class |
| dynrDynamics-class | The dynrDynamics Class |
| dynrDynamicsFormula-class | The dynrDynamics Class |
| dynrDynamicsMatrix-class | The dynrDynamics Class |
| dynrInitial-class | The dynrInitial Class |
| dynrMeasurement-class | The dynrMeasurement Class |
| dynrModel-class | The dynrModel Class |
| dynrNoise-class | The dynrNoise Class |
| dynrRecipe-class | The dynrRecipe Class |
| dynrRegimes-class | The dynrRegimes Class |
| dynrTrans-class | The dynrTrans Class |
| EMG | Single-subject time series of facial electromyography data |
| EMGsim | Simulated single-subject time series to capture features of facial electromyography data |
| ExpandRandomAsLVModel | Extend a user-specified model to include random varibles |
| getdx | A wrapper function to call functions in the fda package to obtain smoothed estimated derivatives at a specified order |
| internalModelPrep | Do internal model preparation for dynr |
| LinearOsc | Simulated time series data for a deterministic linear damped oscillator model |
| LogisticSetPointSDE | Simulated time series data for a stochastic linear damped oscillator model with logistic time-varying setpoints |
| logLik.dynrCook | Extract the log likelihood from a dynrCook Object |
| names-method | Extract the free parameter names of a dynrCook object |
| names-method | Extract the free parameter names of a dynrModel object |
| nobs.dynrCook | Extract the number of observations for a dynrCook object |
| nobs.dynrModel | Extract the number of observations for a dynrModel object |
| NonlinearDFAsim | Simulated multi-subject time series based on a dynamic factor analysis model with nonlinear relations at the latent level |
| oscData | Another simulated multilevel multi-subject time series of a damped oscillator model |
| Oscillator | Simulated time series data of a damped linear oscillator |
| Outliers | Simulated time series data for detecting outliers. |
| PFAsim | Simulated time series data of a multisubject process factor analysis |
| plot.dynrCook | Plot method for dynrCook objects |
| plotFormula | Plot the formula from a model |
| plotGCV | A function to evaluate the generalized cross-validation (GCV) values associated with derivative estimates via Bsplines at a range of specified smoothing parameter (lambda) values |
| PPsim | Simulated time series data for multiple eco-systems based on a predator-and-prey model |
| predict.dynrModel | 'predict' method for 'dynrModel' objects |
| prep.formulaDynamics | Recipe function for specifying dynamic functions using formulas |
| prep.initial | Recipe function for preparing the initial conditions for the model. |
| prep.loadings | Recipe function to quickly create factor loadings |
| prep.matrixDynamics | Recipe function for creating Linear Dynamics using matrices |
| prep.measurement | Prepare the measurement recipe |
| prep.noise | Recipe function for specifying the measurement error and process noise covariance structures |
| prep.regimes | Recipe function for creating regime switching (Markov transition) functions |
| prep.tfun | Create a dynrTrans object to handle the transformations and inverse transformations of model paramters |
| print-method | The dynrCook Class |
| print-method | The dynrModel Class |
| print-method | The dynrRecipe Class |
| printex | The printex Method |
| printex-method | The printex Method |
| RSPPsim | Simulated time series data for multiple eco-systems based on a regime-switching predator-and-prey model |
| show-method | The dynrCook Class |
| show-method | The dynrModel Class |
| show-method | The dynrRecipe Class |
| summary.dynrCook | Get the summary of a dynrCook object |
| theta_plot | A function to plot simple slopes and region of significance. |
| TrueInit_Y14 | Simulated multilevel multi-subject time series of a Van der Pol Oscillator |
| VARsim | Simulated time series data for multiple imputation in dynamic modeling. |
| vcov.dynrCook | Extract the Variance-Covariance Matrix of a dynrCook object |
| vdpData | Another simulated multilevel multi-subject time series of a Van der Pol Oscillator |