# Collocation Inference for Dynamic Systems

## Documentation for package ‘CollocInfer’ version 1.0.4

- DESCRIPTION file.
- Code demos. Use demo() to run them.
- Package NEWS.

## Help Pages

CollocInfer-package | Collocation Inference in R
chemo.fun | Transfer Functions
ChemoData | Chemostat Example Data
ChemoParnames | Chemostat Example Data
ChemoPars | Chemostat Example Data
ChemoRMData | Rosenzweig-MacArthur Model Applied to Chemostat Data
ChemoRMPars | Rosenzweig-MacArthur Model Applied to Chemostat Data
ChemoRMTime | Rosenzweig-MacArthur Model Applied to Chemostat Data
ChemoTime | Chemostat Example Data
ChemoVarnames | Chemostat Example Data
CollocInfer | Collocation Inference in R
CollocInferPlots | Diagnostic PLots for CollocInfer
FhNdata | FitzHugh-Nagumo data
FhNestCoefs | Estimated Parameters for FitzHugh-Nagumo data
FhNestPars | Estimated Parameters for FitzHugh-Nagumo data
FhNparnames | FitzHugh-Nagumo data
FhNpars | FitzHugh-Nagumo data
FhNtimes | FitzHugh-Nagumo data
FhNvarnames | FitzHugh-Nagumo data
FitMatchDC | Estimating Hidden States
FitMatchDC2 | Estimating Hidden States
FitMatchErr | Estimating Hidden States
FitMatchList | Estimating Hidden States
FitMatchOpt | Estimating Hidden States
forward.prediction.error | forward.prediction.error
inneropt | Inner Optimization Functions
IntegrateForward | IntegrateForward
LS.setup | Setup Functions for proc and lik objects
make.Cproc | Process Distributions
make.cvar | Variance Functions
make.diagnostics | Transfer Functions
make.Dproc | Process Distributions
make.exp | Transfer Functions
make.exp.Cproc | Log Transforms
make.exp.Dproc | Log Transforms
make.exptrans | Transfer Functions
make.fhn | Transfer Functions
make.findif | Finite Difference Functions
make.findif.loglik | Finite Difference Functions
make.findif.ode | Finite Difference Functions
make.findif.var | Finite Difference Functions
make.genlin | Transfer Functions
make.Henon | Transfer Functions
make.id | Transfer Functions
make.lik | Observation Process Distribution Function
make.logstate.lik | Log Transforms
make.logtrans | Log Transforms
make.multinorm | Observation Process Distribution Function
make.NS | Transfer Functions
make.SEIR | Transfer Functions
make.SSElik | Observation Process Distribution Function
make.SSEproc | Process Distributions
make.transfer | Transfer Functions
make.var.SEIR | Variance Functions
make.variance | Variance Functions
multinorm.setup | Setup Functions for proc and lik objects
NSgroundwater | North Shore data
NSrainfall | North Shore data
NStimes | North Shore data
outeropt | Outer Optimization Functions
ParsMatchDP | Estimate of Parameters from Smooth
ParsMatchErr | Estimate of Parameters from Smooth
ParsMatchList | Estimate of Parameters from Smooth
ParsMatchOpt | Estimate of Parameters from Smooth
pomp.dmeasure | Observation Process Distribution Function
pomp.skeleton | Transfer Functions
Profile.covariance | Profile.covariance
Profile.GausNewt | Profile Estimation with Collocation Inference
Profile.LS | Profile Estimation Functions
Profile.multinorm | Profile Estimation Functions
ProfileDP | Profile Estimation with Collocation Inference
ProfileErr | Profile Estimation with Collocation Inference
ProfileList | Profile Estimation with Collocation Inference
ProfileSSE | Profile Estimation with Collocation Inference
RMparnames | Rosenzweig-MacArthur Model Applied to Chemostat Data
RMvarnames | Rosenzweig-MacArthur Model Applied to Chemostat Data
SEIRdata | SEIR data
SEIRparnames | SEIR data
SEIRpars | SEIR data
SEIRtimes | SEIR data
SEIRvarnames | SEIR data
setup | Setup Functions for proc and lik objects
Smooth.LS | Model-Based Smoothing Functions
Smooth.multinorm | Model-Based Smoothing Functions
SplineCoefsDC | Spline Estimation Functions
SplineCoefsDC2 | Spline Estimation Functions
SplineCoefsDCDP | Spline Estimation Functions
SplineCoefsDP | Spline Estimation Functions
SplineCoefsErr | Spline Estimation Functions
SplineCoefsList | Spline Estimation Functions
SplineEst.NewtRaph | Spline Estimation Functions