All functions

coef(<cyclopsFit>)

Extract model coefficients

confint(<cyclopsFit>)

Confidence intervals for Cyclops model parameters

convertToCyclopsData()

Convert data from two data frames or ffdf objects into a CyclopsData object

coverage()

Coverage

createAutoGridCrossValidationControl()

Create a Cyclops control object that supports multiple hyperparameters

createControl()

Create a Cyclops control object

createCyclopsData()

Create a Cyclops data object

createNonSeparablePrior()

Create a Cyclops prior object that returns the MLE of non-separable coefficients

createParameterizedPrior()

Create a Cyclops parameterized prior object

createPrior()

Create a Cyclops prior object

cyclops

Cyclops: Cyclic coordinate descent for logistic, Poisson and survival analysis

fitCyclopsModel()

Fit a Cyclops model

fitCyclopsSimulation()

Fit simulated data

getCovariateIds()

Get covariate identifiers

getCovariateTypes()

Get covariate types

getFloatingPointSize()

Get floating point size

getHyperParameter()

Get hyperparameter

getNumberOfCovariates()

Get total number of covariates

getNumberOfRows()

Get total number of rows

getNumberOfStrata()

Get number of strata

getUnivariableCorrelation()

Get univariable correlation

getUnivariableSeparability()

Get univariable linear separability

isInitialized()

Check if a Cyclops data object is initialized

isSorted()

Check if data are sorted by one or more columns

logLik(<cyclopsFit>)

Extract log-likelihood

meanLinearPredictor()

Calculates xbar*beta

mse()

Mean squared error

Multitype()

Create a multitype outcome object

oxford

Oxford self-controlled case series data

predict(<cyclopsFit>)

Model predictions

print(<cyclopsData>)

Print a Cyclops data object

print(<cyclopsFit>)

Print a Cyclops model fit object

readCyclopsData()

Read Cyclops data from file

simulateCyclopsData()

Simulation Cyclops dataset

summary(<cyclopsData>)

Cyclops data object summary

survfit(<cyclopsFit>)

Calculate baseline hazard function

vcov(<cyclopsFit>)

Calculate variance-covariance matrix for a fitted Cyclops model object