# MAnifold-Constrained Gaussian Process Inference

## Documentation for package ‘magi’ version 1.2.1

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## Help Pages

calCov | Calculate stationary Gaussian process kernel
FNdat | Dataset of noisy observations from the FitzHugh-Nagumo (FN) equations
fnmodelDtheta | The FitzHugh-Nagumo (FN) equations
fnmodelDx | The FitzHugh-Nagumo (FN) equations
fnmodelODE | The FitzHugh-Nagumo (FN) equations
gpsmoothing | Gaussian process smoothing
gpsmoothllik | Marginal log-likelihood for Gaussian process smoothing
hes1logmodelDtheta | Hes1 equations: oscillation of mRNA and protein levels
hes1logmodelDx | Hes1 equations: oscillation of mRNA and protein levels
hes1logmodelODE | Hes1 equations: oscillation of mRNA and protein levels
hes1modelDtheta | Hes1 equations: oscillation of mRNA and protein levels
hes1modelDx | Hes1 equations: oscillation of mRNA and protein levels
hes1modelODE | Hes1 equations: oscillation of mRNA and protein levels
is.magioutput | MagiSolver output ('magioutput') object
magi | 'magi': MAnifold-Constrained Gaussian Process Inference
magioutput | MagiSolver output ('magioutput') object
MagiPosterior | MAGI posterior density
MagiSolver | MAnifold-constrained Gaussian process Inference (MAGI)
plot.magioutput | Plot trajectories from 'magioutput' object
ptransmodelDtheta | Protein transduction model
ptransmodelDx | Protein transduction model
ptransmodelODE | Protein transduction model
setDiscretization | Set discretization level
summary.magioutput | Summary of parameter estimates from 'magioutput' object
testDynamicalModel | Test dynamic system model specification