bayesSurv: Bayesian Survival Regression with Flexible Error and Random Effects Distributions

Contains Bayesian implementations of Mixed-Effects Accelerated Failure Time (MEAFT) models for censored data. Those can be not only right-censored but also interval-censored, doubly-interval-censored or misclassified interval-censored.

AuthorArnošt Komárek <arnost.komarek@mff.cuni.cz>
Date of publication2015-07-28 00:15:30
MaintainerArnošt Komárek <arnost.komarek@mff.cuni.cz>
LicenseGPL (>= 2)
Version2.6
http://msekce.karlin.mff.cuni.cz/~komarek

View on CRAN

Man pages

bayesBisurvreg: Population-averaged accelerated failure time model for...

bayesBisurvreg.help: Helping function for Bayesian regression with smoothed...

bayesDensity: Summary for the density estimate based on the mixture...

bayesGspline: Summary for the density estimate based on the model with...

bayesHistogram: Smoothing of a uni- or bivariate histogram using Bayesian...

bayesHistogram.help: Helping function for Bayesian smoothing of (bi)-variate...

bayessurvreg1: A Bayesian survival regression with an error distribution...

bayessurvreg1.files2init: Read the initial values for the Bayesian survival regression...

bayessurvreg1.help: Helping function for Bayesian survival regression models,...

bayessurvreg2: Cluster-specific accelerated failure time model for...

bayessurvreg2.help: Helping functions for Bayesian regression with an error...

bayessurvreg3: Cluster-specific accelerated failure time model for...

bayessurvreg3.help: Helping functions for Bayesian regression with an error...

bayessurvreg.help: Helping function for Bayesian survival regression models.

cgd: Chronic Granulomatous Disease data

credible.region: Compute a simultaneous credible region (rectangle) from a...

densplot2: Probability density function estimate from MCMC output

files2coda: Read the sampled values from the Bayesian survival regression...

files.Gspline: Write headers to or clean files with sampled G-spline

give.init: Check and possibly fill in initial values for the G-spline,...

give.summary: Brief summary for the chain(s) obtained using the MCMC.

marginal.bayesGspline: Summary for the marginal density estimates based on the...

plot.bayesDensity: Plot an object of class bayesDensity

plot.bayesGspline: Plot an object of class bayesGspline

plot.marginal.bayesGspline: Plot an object of class marginal.bayesGspline

predictive: Compute predictive quantities based on a Bayesian survival...

predictive2: Compute predictive quantities based on a Bayesian survival...

print.bayesDensity: Print a summary for the density estimate based on the...

rMVNorm: Sample from the multivariate normal distribution

rWishart: Sample from the Wishart distribution

sampleCovMat: Compute a sample covariance matrix.

sampled.kendall.tau: Estimate of the Kendall's tau from the bivariate model

scanFN: Read Data Values

simult.pvalue: Compute a simultaneous p-value from a sample for a vector...

tandmob2: Signal Tandmobiel data, version 2

tandmobRoos: Signal Tandmobiel data, version Roos

traceplot2: Trace plot of MCMC output.

vecr2matr: Transform single component indeces to double component...

Functions

bayesBisurvreg Man page
bayesBisurvreg.checkStore Man page
bayesBisurvreg.help Man page
bayesBisurvreg.priorBeta Man page
bayesBisurvreg.priorInit Man page
bayesBisurvreg.writeHeaders Man page
bayesDensity Man page
bayesGspline Man page
bayesHistogram Man page
bayesHistogram.checkStore Man page
bayesHistogram.design Man page
bayesHistogram.help Man page
bayesHistogram.priorInit Man page
bayesHistogram.writeHeaders Man page
bayessurvreg1 Man page
bayessurvreg1.checkStore Man page
bayessurvreg1.files2init Man page
bayessurvreg1.help Man page
bayessurvreg1.priorb Man page
bayessurvreg1.priorBeta Man page
bayessurvreg1.priorInit Man page
bayessurvreg1.revjump Man page
bayessurvreg1.writeHeaders Man page
bayessurvreg2 Man page
bayessurvreg2.checkStore Man page
bayessurvreg2.help Man page
bayessurvreg2.priorb Man page
bayessurvreg2.priorBeta Man page
bayessurvreg2.priorInit Man page
bayessurvreg2.writeHeaders Man page
bayessurvreg3 Man page
bayessurvreg3.checkrho Man page
bayessurvreg3.checkStore Man page
bayessurvreg3.help Man page
bayessurvreg3Para Man page
bayessurvreg3.priorb Man page
bayessurvreg3.priorBeta Man page
bayessurvreg3.priorInit Man page
bayessurvreg3.priorinitNb Man page
bayessurvreg3.writeHeaders Man page
bayessurvreg.checknsimul Man page
bayessurvreg.design Man page
bayessurvreg.help Man page
cgd Man page
clean.Gspline Man page
credible.region Man page
densplot2 Man page
files2coda Man page
give.init.Gspline Man page
give.init.r Man page
give.init.y Man page
give.init.y2 Man page
give.summary Man page
marginal.bayesGspline Man page
plot.bayesDensity Man page
plot.bayesGspline Man page
plot.marginal.bayesGspline Man page
predictive Man page
predictive2 Man page
predictive2.control Man page
predictive2Para Man page
predictive.control Man page
print.bayesDensity Man page
print.simult.pvalue Man page
rMVNorm Man page
rWishart Man page
sampleCovMat Man page
sampled.kendall.tau Man page
scanFN Man page
simult.pvalue Man page
tandmob2 Man page
tandmobRoos Man page
traceplot2 Man page
vecr2matr Man page
write.headers.Gspline Man page

Files

bayesSurv
bayesSurv/inst
bayesSurv/inst/CITATION
bayesSurv/inst/doc
bayesSurv/inst/doc/index.html
bayesSurv/inst/doc/IDsampled500.dat
bayesSurv/inst/doc/ex-tandmobCS.R
bayesSurv/inst/doc/ex-tandmobPA.R
bayesSurv/inst/doc/ex-cgd.R
bayesSurv/inst/doc/ex-tandmobMixture.R
bayesSurv/inst/doc/IDsampled50.dat
bayesSurv/src
bayesSurv/src/templatefun_GS.h
bayesSurv/src/logLikelihood.h
bayesSurv/src/Makevars
bayesSurv/src/GMRF_Gspline_Util.h
bayesSurv/src/classRandomEff_rhoNorm.cpp
bayesSurv/src/predictive.cpp
bayesSurv/src/sampledKendallTau.h
bayesSurv/src/List.h
bayesSurv/src/regresResidual_GS.h
bayesSurv/src/miscellaneous_GS.cpp
bayesSurv/src/ARS2.h
bayesSurv/src/randomLogLikelihood.h
bayesSurv/src/constants.h
bayesSurv/src/Gspline_update_lambda.cpp
bayesSurv/src/bayessurvreg2.h
bayesSurv/src/update_Data_GS.cpp
bayesSurv/src/propVector.h
bayesSurv/src/splitCombine.h
bayesSurv/src/bayessurvreg1.h
bayesSurv/src/arms.h
bayesSurv/src/random.cpp
bayesSurv/src/updateMeans.cpp
bayesSurv/src/bayesHistogram.h
bayesSurv/src/updateCovMatRandom.cpp
bayesSurv/src/rhoNorm.cpp
bayesSurv/src/Gspline_update_sigma.cpp
bayesSurv/src/openFile.h
bayesSurv/src/updateCovMatRandom.h
bayesSurv/src/classCovMatrix.cpp
bayesSurv/src/Gspline_update_gamma.cpp
bayesSurv/src/update_sens_spec_misclassification.h
bayesSurv/src/bayesBisurvreg.h
bayesSurv/src/updateEta.cpp
bayesSurv/src/bayesGspline.cpp
bayesSurv/src/Gspline_update_Scale.cpp
bayesSurv/src/mixMoments.h
bayesSurv/src/cholesky.cpp
bayesSurv/src/rhoNorm.h
bayesSurv/src/newton_raphson.h
bayesSurv/src/AK_BLAS_LAPACK.h
bayesSurv/src/arms.cpp
bayesSurv/src/bblocks.cpp
bayesSurv/src/classBetaGamma.cpp
bayesSurv/src/Gspline.cpp
bayesSurv/src/Gspline_update_a.cpp
bayesSurv/src/updateWeights.h
bayesSurv/src/quantile.cpp
bayesSurv/src/random.h
bayesSurv/src/classCovMatrix.h
bayesSurv/src/covMatrix.h
bayesSurv/src/Slice_sampler2.cpp
bayesSurv/src/updateRegres.cpp
bayesSurv/src/MHproposal.cpp
bayesSurv/src/Gspline.h
bayesSurv/src/bayesGspline.h
bayesSurv/src/updateVars.h
bayesSurv/src/updateRandom.h
bayesSurv/src/predictMisc.h
bayesSurv/src/MHblocks.cpp
bayesSurv/src/covMatrix.cpp
bayesSurv/src/logLikelihood.cpp
bayesSurv/src/in_output_GS.h
bayesSurv/src/bblocks.h
bayesSurv/src/updateEta.h
bayesSurv/src/bayessurvreg1.cpp
bayesSurv/src/ARS2.cpp
bayesSurv/src/templatefun_GS.cpp
bayesSurv/src/classBetaGamma.h
bayesSurv/src/regresResidual_GS.cpp
bayesSurv/src/miscellaneous.cpp
bayesSurv/src/updateAlloc.h
bayesSurv/src/bayessurvreg2.cpp
bayesSurv/src/bayesDensity.cpp
bayesSurv/src/mvtdist.h
bayesSurv/src/GMRF.h
bayesSurv/src/classBetaGammaExtend.cpp
bayesSurv/src/in_output.cpp
bayesSurv/src/classBetaGammaExtend.h
bayesSurv/src/updateRegres.h
bayesSurv/src/arrays2Mat.h
bayesSurv/src/updateMeans.h
bayesSurv/src/GMRF.cpp
bayesSurv/src/moodyRing.h
bayesSurv/src/update_sens_spec_misclassification.cpp
bayesSurv/src/predictMisc.cpp
bayesSurv/src/splitCombine.cpp
bayesSurv/src/newton_raphson.cpp
bayesSurv/src/bayessurvreg.h
bayesSurv/src/MHproposal.h
bayesSurv/src/updateAlloc.cpp
bayesSurv/src/structRandomEff32.cpp
bayesSurv/src/structRandomEff32.h
bayesSurv/src/arrays2Mat.cpp
bayesSurv/src/classCovMatrixExtend.h
bayesSurv/src/templatefun.cpp
bayesSurv/src/in_output.h
bayesSurv/src/updateVars.cpp
bayesSurv/src/mixMoments.cpp
bayesSurv/src/marginal_bayesGspline.h
bayesSurv/src/updateData.cpp
bayesSurv/src/bayesBisurvreg.cpp
bayesSurv/src/Mvtdist3.h
bayesSurv/src/updateWeights.cpp
bayesSurv/src/bayesDensity.h
bayesSurv/src/sampledKendallTau.cpp
bayesSurv/src/GMRF_Gspline.h
bayesSurv/src/classRandomEff.h
bayesSurv/src/List.cpp
bayesSurv/src/classRandomEff.cpp
bayesSurv/src/checkImputeData.cpp
bayesSurv/src/Mvtdist3.cpp
bayesSurv/src/miscellaneous.h
bayesSurv/src/update_Alloc_GS.h
bayesSurv/src/Gspline_update_Intcpt.cpp
bayesSurv/src/cholesky.h
bayesSurv/src/openFile.cpp
bayesSurv/src/GMRF_Gspline.cpp
bayesSurv/src/MHblocks.h
bayesSurv/src/predictive.h
bayesSurv/src/updateData.h
bayesSurv/src/update_Data_GS.h
bayesSurv/src/moodyRing.cpp
bayesSurv/src/classCovMatrixExtend.cpp
bayesSurv/src/predictive_GS.h
bayesSurv/src/AK_BasicFun.h
bayesSurv/src/GMRF_Gspline_Util.cpp
bayesSurv/src/propVector.cpp
bayesSurv/src/checkImputeData.h
bayesSurv/src/predictive_GS.cpp
bayesSurv/src/mvtdist.cpp
bayesSurv/src/templatefun.h
bayesSurv/src/randomLogLikelihood.cpp
bayesSurv/src/birthDeath.cpp
bayesSurv/src/qrdecomp.cpp
bayesSurv/src/in_output_GS.cpp
bayesSurv/src/updateRandom.cpp
bayesSurv/src/miscellaneous_GS.h
bayesSurv/src/Slice_sampler2.h
bayesSurv/src/marginal_bayesGspline.cpp
bayesSurv/src/birthDeath.h
bayesSurv/src/quantile.h
bayesSurv/src/AK_Error.h
bayesSurv/src/classRandomEff_rhoNorm.h
bayesSurv/src/qrdecomp.h
bayesSurv/src/update_Alloc_GS.cpp
bayesSurv/src/bayesHistogram.cpp
bayesSurv/src/AK_BLAS_LAPACK.cpp
bayesSurv/NAMESPACE
bayesSurv/data
bayesSurv/data/tandmob2.RData
bayesSurv/data/tandmobRoos.RData
bayesSurv/data/cgd.RData
bayesSurv/R
bayesSurv/R/traceplot2.R bayesSurv/R/bayessurvreg.design.R bayesSurv/R/bayessurvreg2.checkStore.R bayesSurv/R/bayesBisurvreg.priorBeta.R bayesSurv/R/bayesHistogram.design.R bayesSurv/R/bayessurvreg1.writeHeaders.R bayesSurv/R/predictive2.control.R bayesSurv/R/bayessurvreg3.priorinitNb.R bayesSurv/R/simult.pvalue.R bayesSurv/R/bayessurvreg3.priorInit.R bayesSurv/R/bayessurvreg3.R bayesSurv/R/give.init.Gspline.R bayesSurv/R/credible.region.R bayesSurv/R/rMVNorm.R bayesSurv/R/bayesBisurvreg.checkStore.R bayesSurv/R/bayessurvreg1.revjump.R bayesSurv/R/give.summary.R bayesSurv/R/bayesGspline.R bayesSurv/R/bayessurvreg2.writeHeaders.R bayesSurv/R/bayessurvreg3.checkStore.R bayesSurv/R/predictive2Para.R bayesSurv/R/densplot2.R bayesSurv/R/bayesBisurvreg.writeHeaders.R bayesSurv/R/bayessurvreg3.priorBeta.R bayesSurv/R/bayesDensity.R bayesSurv/R/bayessurvreg3.writeHeaders.R bayesSurv/R/give.init.r.R bayesSurv/R/bayesHistogram.writeHeaders.R bayesSurv/R/bayessurvreg1.checkStore.R bayesSurv/R/bayesHistogram.checkStore.R bayesSurv/R/predictive2.R bayesSurv/R/bayessurvreg1.priorBeta.R bayesSurv/R/bayessurvreg3.priorb.R bayesSurv/R/files.Gspline.R bayesSurv/R/bayessurvreg2.priorBeta.R bayesSurv/R/rWishart.R bayesSurv/R/bayessurvreg1.R bayesSurv/R/bayessurvreg1.files2init.R bayesSurv/R/sampleCovMat.R bayesSurv/R/sampled.kendall.tau.R bayesSurv/R/predictive.control.R bayesSurv/R/bayessurvreg2.R bayesSurv/R/predictive.R bayesSurv/R/bayessurvreg1.priorInit.R bayesSurv/R/bayessurvreg1.priorb.R bayesSurv/R/bayessurvreg2.priorb.R bayesSurv/R/bayesBisurvreg.priorInit.R bayesSurv/R/give.init.y.R bayesSurv/R/files2coda.R bayesSurv/R/bayessurvreg2.priorInit.R bayesSurv/R/bayesHistogram.R bayesSurv/R/marginal.bayesGspline.R bayesSurv/R/bayessurvreg.checknsimul.R bayesSurv/R/zzz.R bayesSurv/R/scanFN.R bayesSurv/R/bayessurvreg3.checkrho.R bayesSurv/R/bayessurvreg3Para.R bayesSurv/R/vecr2matr.R bayesSurv/R/bayesBisurvreg.R bayesSurv/R/bayesHistogram.priorInit.R
bayesSurv/MD5
bayesSurv/DESCRIPTION
bayesSurv/man
bayesSurv/man/bayesGspline.Rd bayesSurv/man/plot.bayesGspline.Rd bayesSurv/man/plot.bayesDensity.Rd bayesSurv/man/bayessurvreg2.help.Rd bayesSurv/man/predictive.Rd bayesSurv/man/print.bayesDensity.Rd bayesSurv/man/marginal.bayesGspline.Rd bayesSurv/man/give.init.Rd bayesSurv/man/bayesDensity.Rd bayesSurv/man/bayessurvreg.help.Rd bayesSurv/man/simult.pvalue.Rd bayesSurv/man/plot.marginal.bayesGspline.Rd bayesSurv/man/tandmob2.Rd bayesSurv/man/tandmobRoos.Rd bayesSurv/man/bayessurvreg2.Rd bayesSurv/man/give.summary.Rd bayesSurv/man/credible.region.Rd bayesSurv/man/bayesHistogram.help.Rd bayesSurv/man/vecr2matr.Rd bayesSurv/man/bayessurvreg3.Rd bayesSurv/man/files2coda.Rd bayesSurv/man/bayessurvreg1.Rd bayesSurv/man/sampleCovMat.Rd bayesSurv/man/densplot2.Rd bayesSurv/man/cgd.Rd bayesSurv/man/bayessurvreg1.help.Rd bayesSurv/man/bayesHistogram.Rd bayesSurv/man/traceplot2.Rd bayesSurv/man/rMVNorm.Rd bayesSurv/man/scanFN.Rd bayesSurv/man/rWishart.Rd bayesSurv/man/files.Gspline.Rd bayesSurv/man/bayessurvreg3.help.Rd bayesSurv/man/bayessurvreg1.files2init.Rd bayesSurv/man/sampled.kendall.tau.Rd bayesSurv/man/bayesBisurvreg.Rd bayesSurv/man/predictive2.Rd bayesSurv/man/bayesBisurvreg.help.Rd
bayesSurv/CHANGES

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