Package: reda 0.5.6

reda: Recurrent Event Data Analysis

Contains implementations of recurrent event data analysis routines including (1) survival and recurrent event data simulation from stochastic process point of view by the thinning method proposed by Lewis and Shedler (1979) <doi:10.1002/nav.3800260304> and the inversion method introduced in Cinlar (1975, ISBN:978-0486497976), (2) the mean cumulative function (MCF) estimation by the Nelson-Aalen estimator of the cumulative hazard rate function, (3) two-sample recurrent event responses comparison with the pseudo-score tests proposed by Lawless and Nadeau (1995) <doi:10.2307/1269617>, (4) gamma frailty model with spline rate function following Fu, et al. (2016) <doi:10.1080/10543406.2014.992524>.

Authors:Wenjie Wang [aut, cre], Haoda Fu [aut], Sy Han Chiou [ctb], Jun Yan [ctb]

reda_0.5.6.tar.gz
reda_0.5.6.zip(r-4.7)reda_0.5.6.zip(r-4.6)reda_0.5.6.zip(r-4.5)
reda_0.5.6.tgz(r-4.6-x86_64)reda_0.5.6.tgz(r-4.6-arm64)reda_0.5.6.tgz(r-4.5-x86_64)reda_0.5.6.tgz(r-4.5-arm64)
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reda_0.5.6.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
reda/json (API)

# Install 'reda' in R:
install.packages('reda', repos = c('https://wenjie2wang.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/wenjie2wang/reda/issues

Pkgdown/docs site:https://wwenjie.org

Uses libs:
  • c++– GNU Standard C++ Library v3
  • openmp– GCC OpenMP (GOMP) support library
Datasets:

On CRAN:

Conda:

mcfmean-cumulative-functionrecurrent-eventsurvival-analysiscppopenmp

7.92 score 17 stars 5 packages 72 scripts 721 downloads 1 mentions 22 exports 3 dependencies

Last updated from:1c6d4a3f76. Checks:13 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-arm64OK156
linux-devel-x86_64OK132
source / vignettesOK234
linux-release-arm64OK156
linux-release-x86_64OK160
macos-release-arm64OK93
macos-release-x86_64OK183
macos-oldrel-arm64OK95
macos-oldrel-x86_64OK210
windows-develOK143
windows-releaseOK143
windows-oldrelOK128
wasm-releaseOK154

Exports:%2%%to%AICbaseRateBICcheck_Recurcoefconfintis.RecurmcfmcfDiffmcfDiff.testparametrizeplotrateRegrateReg.controlRecurshowsimEventsimEventDatasummarySurvr

Dependencies:RcppRcppArmadillosplines2

Introduction to Formula Response Function Recur()
Overview | Function Interface | The Recur Object | Usage | When only time is given | When time and id are given | Helper %to% for recurrent episodes | About origin and terminal | Data Checking Rules | The Show() Method | The Valve Seats Example | On Missing times | Number of digits
Rendered fromreda-Recur.Rmdusingknitr::rmarkdown

Last update: 2020-08-15
Started: 2019-10-30

Introduction to reda through Examples
Introduction | Simulated recurrent event data | Data checking | Exploratory analysis | Nonparametric Mean Cumulative Function Estimates | Comparing two-sample MCFs | Gamma frailty model | Model with constant rate function | Model with piecewise constant rate function | Model with spline rate function | Summary of model fits | Model selection | Baseline rate function | Estimated MCF from the fitted model | Reference
Rendered fromreda-intro.Rmdusingknitr::rmarkdown

Last update: 2020-03-25
Started: 2015-09-22

Simulate Survival and Recurrent Event Data with reda
Introduction | Intensity function | Relative risk model | Accelerated failure time model | Intensity function in general form | Sampling methods | Getting started | Poisson process | Homogeneous Poisson process | Nonhomogeneous Poisson process | Renewal processes | Beyond time-invariance | Time-variant covariates | Time-variant covariate coefficients | Frailty models | Frailty for individual processes | Shared frailty for clusters | Common parametric survival models | Weibull model | Gompertz model | Log-logistic model | Log-normal model | Reference
Rendered fromreda-simulate.Rmdusingknitr::rmarkdown

Last update: 2020-03-25
Started: 2017-11-10

Readme and manuals

Help Manual

Help pageTopics
Akaike Information Criterion (AIC)AIC,rateReg-method
Convert An Recur Object to A Character Vectoras.character,Recur-method
Estimated Baseline Rate FunctionbaseRate baseRate,rateReg-method
An S4 Class Representing Estimated Baseline Rate FunctionbaseRate.rateReg-class
Bayesian Information Criterion (BIC)BIC,rateReg-method
Checks for Recurrent Event Datacheck_Recur
Estimated Coefficients of Covariatescoef,rateReg-method
Confidence Intervals for Covariate Coefficientsconfint,rateReg-method
Is the xect from the Recur class?is.Recur
Mean Cumulative Function (MCF)mcf mcf,formula-method mcf,rateReg-method
An S4 Class Representing Sample MCFmcf.formula-class
An S4 Class Respresenting Estimated MCF from a Fitted Modelmcf.rateReg-class
Comparing Two-Sample MCFs-,mcf.formula,mcf.formula-method mcfDiff mcfDiff.test
An S4 Class Representing Sample MCF DifferencemcfDiff-class
An S4 Class Representing the Two-Sample Pseudo-Score Test ResultsmcfDiff.test-class
Parametrizations of Covariates and Covariate Coefficientsparametrize
Plot Baseline Rate or Mean Cumulative Function (MCF)plot,baseRate.rateReg,missing-method plot,baseRate.rateReg-method plot,mcf.formula,missing-method plot,mcf.formula-method plot,mcf.rateReg,missing-method plot,mcf.rateReg-method plot,mcfDiff,missing-method plot,mcfDiff-method plot-method
Recurrent Events Regression Based on Counts and Rate FunctionrateReg rateReg.control
An S4 Class Representing a Fitted ModelrateReg-class
Formula Response for Recurrent Event DataRecur
An S4 Class Representing Formula Response for Recurrent Event DataRecur-class
Recurrent Episodes%2% %to% Recur-to
Show an object.show,mcf.formula-method show,mcf.rateReg-method show,mcfDiff-method show,mcfDiff.test-method show,rateReg-method show,Recur-method show,simEvent-method show,summary.rateReg-method show,summary.Recur-method show,summaryRateReg-method show-method
Simulated Survival times or Recurrent EventssimEvent simEventData
An S4 Class for Simulated Recurrent Event or Survival TimessimEvent-class
Simulated Sample Dataset for DemonstrationsimuDat
Summarizing a Fitted Modelsummary,rateReg-method
Summarize an 'Recur' objectsummary,Recur-method
An S4 Class Representing Summary of a Fitted Modelsummary.rateReg-class
An S4 Class for Summarized Recur Objectsummary.Recur-class
Formula Response for Recurrent Event DataSurvr
An S4 Class Representing Formula ResponseSurvr-class
Valve Seats DatasetvalveSeats