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...

Files in this package

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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