Bayesian Fractional Polynomials for GLMs

as.data.frame.GlmBayesMfp | Convert a GlmBayesMfp object into a data frame |

boxTidwell | Box Tidwell transformation |

computeModels | Compute model information for a given list of model... |

constructNewdataMatrix | Construct the covariates matrix for new data based on an... |

convert2Mcmc | Convert samples to mcmc objects |

coxTBF | Fit Cox models using glmBayesMfp |

cppBfgs | Interface to the internal C++ optimization routine "bfgs" |

cppOptimize | Interface to the internal C++ optimization routine "optimize" |

CustomGPrior | Constructor for the custom g-prior class |

CustomGPrior-class | The custom g-prior class |

empiricalHpd | Construct an empirical HPD interval from samples |

evalZdensity | Evaluate the (negative log) unnormalized marginal z density... |

Extract.GlmBayesMfp | Extract method for GlmBayesMfp objects |

formula | Mark a covariate for transformation with fractional... |

fpScale | Shift and scale a covariate vector (if wished) to have... |

fpTrans | Transform formula variables |

getDesignMatrix | Construct the design matrix for a given bfp GLM model |

getFamily | Helper function for glmBayesMfp: Extracts an S3 family object |

getFpTransforms | Get the FP transforms matrix of a given covariate vector |

getGenerator | Internal helper function which gets the generator (and... |

getLogGPrior | Helper function for glmBayesMfp: Returns the normalized log g... |

getLogMargLikEstimate | Compute the Chib-Jeliazkov log marginal likelihood estimate... |

getMarginalZ | Construct a (smooth) marginal z density approximation from a... |

getModelCoefs | Estimate shrunken coefficients from GlmBayesMfp object for... |

getUncenteredDesignMatrix | Construct the design matrix for a given bfp GLM model |

glmBayesMfp | Bayesian model inference for fractional polynomial GLMs and... |

GlmBayesMfpSamples-class | Class for samples from a single GlmBayesMfp model or a model... |

GlmBayesMfpSamples-subsetting | Subset method for GlmBayesMfpSamples objects |

glmBfp-package | Bayesian inference for fractional polynomial models from the... |

GPrior-class | The virtual g-prior class |

HypergPrior | Constructor for the hyper-g prior class |

HypergPrior-class | The hyper-g prior class |

HypergPrior-initialize | Initialization method for the "HypergPrior" class |

IncInvGammaGPrior | Constructor for the incomplete inverse gamma g-prior class |

IncInvGammaGPrior-class | The incomplete inverse gamma g-prior class |

IncInvGammaGPrior-initialize | Initialization method for the "IncInvGammaGPrior" class |

inclusionProbs | Compute posterior inclusion probabilites based on GlmBayesMfp... |

InvGammaGPrior | Constructor for the inverse gamma g-prior class |

InvGammaGPrior-class | The inverse gamma g-prior class |

InvGammaGPrior-initialize | Initialization method for the "InvGammaGPrior" class |

is.bool | Predicate checking for a boolean option |

logMargLiks | Extract the log marginal likelihood estimates from a... |

logPriors | Extract the log prior values from a GlmBayesMfp object |

McmcOptions | Constructor for class McmcOptions |

McmcOptions-class | Class for the three canonical MCMC options |

plotCurveEstimate | Function for plotting a fractional polynomial curve estimate |

posteriors | Extract posterior model probability estimates from a... |

predict.TBFcox | Prediction methods for CoxTBF objects |

predict.TBFcox.BMA | Prediction methods for CoxTBF objects for BMA models |

predict.TBFcox.sep | Prediction methods for CoxTBF objects with separate estimates |

print.GlmBayesMfp | Print a GlmBayesMfp object. |

sampleBma | Produce posterior samples from a Bayesian model average over... |

sampleGlm | Produce posterior samples from one GLM / Cox model |

sampleSize | Compute the number of samples for a given MCMC options triple |

scrHpd | Calculate an SCB from a samples matrix |

SMARTfull | Imputed and transformed data extract from the SMART study |

testCox | Test the Cox model computation for the TBF approach |

writeFormula | Construct a survival formula based on a glmBfp object with... |

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