Cyclic Coordinate Descent for Logistic, Poisson and Survival Analysis

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Documentation for package ‘Cyclops’ version 1.3.0

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cyclops-package Cyclops: Cyclic coordinate descent for logistic, Poisson and survival analysis
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
convertToCyclopsData.data.frame Convert data from two data frames or ffdf objects into a CyclopsData object
convertToCyclopsData.ffdf 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
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
getHyperParameter Get hyperparameter
getNumberOfCovariates Get total number of covariates
getNumberOfRows Get total number of rows
getNumberOfStrata Get number of strata
getUnivariableCorrelation Get univariable correlation
isInitialized Check if a Cyclops data object is initialized
isSorted Check if data are sorted by one or more columns
isSorted.data.frame Check if data are sorted by one or more columns
isSorted.ffdf 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
printMatrixMarket Print Cyclops data matrix to file
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