biostatUZH: Misc Tools of the Department of Biostatistics, EBPI, University of Zurich

Various functions developed at the Department of Biostatistics, Epidemiology, Biostatistics and Prevention Institute, University of Zurich, Zurich, Switzerland. Currently implemented topics: several CI's for proportions, several CI's for diagnostic tests, Fagan-Nomogram, bootstrap CI's for the kappa coefficient, intraclass-correlation coefficients including CI's, agreement for continuous measurements (Bland-Altman plot), CI for the area under the curve (AUC), Mantel-Haenszel estimator, Mantel-Cox hazard ratio estimator, CI for the Kaplan-Meier estimate at given time points, CI for quantile of a Kaplan-Meier or cumulative incidence estimate, sample size computations for two-sample Mann-Whitney test, McNemar test, binary diagnostic test (via normal approximation and simulation), natural re-parametrization of Weibull output from survreg, hazard ratio and event time ratio interpretations, a plot to check the adequacy of the Weibull model.

AuthorSarah R. Haile [aut], Leonhard Held [aut, cre], Sebastian Meyer [aut], Sina Rueeger [aut], Kaspar Rufibach [aut], Daniel Sabanes Bove [ctb], R Core Team [cph]
Date of publication2016-12-12 11:49:11
MaintainerLeonhard Held <leonhard.held@uzh.ch>
LicenseGPL (>=2)
Version1.7.0
http://www.biostat.uzh.ch
http://ebuzh.r-forge.r-project.org

View on R-Forge

Man pages

biostatUZH-package: Misc Tools of the Department of Biostatistics, EBPI,...

BlandAltman: Bland-Altman plot to assess agreement between two continuous...

computeICCrater: Compute intraclass correlation coefficients ICC(2, 1) and...

confIntAUC: Compute confidence interval for AUC

confIntAUCbinorm: Function to compute ROC curve and (bootstrap) confidence...

confIntDiagnostic: Compute confidence intervals for operating characteristics of...

confIntFisherTrafo: Confidence interval for correlation coefficient using...

confIntICC: Confidence intervals for intraclass correlation in interrater...

confIntIndependentDiagnostic: Compute confidence intervals for the comparison of two...

confIntIndependentProportion: Compute confidence interval for the risk difference of two...

confIntKappa: Confidence intervals for weighted kappa and m >= 2 raters

confIntKM_t0: Compute confidence interval for a survival curve at a fixed...

confIntMedian: Compute exact confidence interval for median of a sample...

confIntPairedDiagnostic: Compute confidence intervals for the comparison of two...

confIntPairedProportion: Compute confidence interval for the difference of paired...

confIntProportion: Compute confidence interval for a binomial proportion via...

confIntRiskDiff: Compute confidence interval for a risk difference

confIntRiskRatio: Compute confidence interval for a risk ratio

ConvertWeibull: Transformation of survreg output for the Weibull distribution

faganPlot: Fagan-Nomogram

fischdaten: Data of the 'Fischstudie'

formatCI: Format (Confidence) Intervals

formatPercent: Format a Numeric Proportion

formatPval: Format p-Values

larynx: Survival Times of Larynx Cancer Patients

logit: Logit and inverse-logit function

mantelCoxHR: Mantel-Cox estimator of the hazard ratio

mantelHaenszel: Cochran-Mantel-Haenszel Chi-Squared Test for Count Data

plotcorr: Compact Visualization of a Correlation Matrix

populationSamplePlot: Plot that shows population and sample drawn from it

quantileCumInc: Compute arbitrary quantile of a Cumulative Incidence estimate

quantileKM: Compute arbitrary quantile of a Kaplan-Meier estimate of a...

sampleSizeMcNemar: Compute sample size for McNemar test

sampleSizePhase2BinaryTest: Compute sample size for a Phase 2 study of a binary test

sampleSizeWilcoxTwoSample: Compute sample size for two sample Wilcoxon (Mann-Whitney)...

standardErrorAUC: Standard Error of AUC

summaryROC: Function to compute ROC curve and an asymptotic confidence...

survrep: Survival Analysis Results for Reports

tableRegression: Format Coefficient Tables of Regression Models

WeibullDiag: Diagnostic Plot of Adequacy of Weibull Distribution

WeibullReg: Weibull Regression for Survival Data

Files in this package

biostatUZH/DESCRIPTION
biostatUZH/NAMESPACE
biostatUZH/R
biostatUZH/R/AUCbinorm.R biostatUZH/R/Aalpha.R biostatUZH/R/BlandAltman.R biostatUZH/R/ConvertWeibull.R biostatUZH/R/WeibullDiag.R biostatUZH/R/WeibullReg.R biostatUZH/R/agresti.R biostatUZH/R/behrensTest.R biostatUZH/R/clopperPearson.R biostatUZH/R/computeICCrater.R biostatUZH/R/confIntAUC.R biostatUZH/R/confIntAUCbinorm.R biostatUZH/R/confIntDiagnostic.R biostatUZH/R/confIntFisherTrafo.R biostatUZH/R/confIntICC.R biostatUZH/R/confIntIndependentDiagnostic.R biostatUZH/R/confIntIndependentProportion.R biostatUZH/R/confIntKM_t0.R biostatUZH/R/confIntKappa.R biostatUZH/R/confIntMedian.R biostatUZH/R/confIntPairedDiagnostic.R biostatUZH/R/confIntPairedProportion.R biostatUZH/R/confIntProportion.R biostatUZH/R/confIntRiskDiff.R biostatUZH/R/confIntRiskRatio.R biostatUZH/R/faganLine.R biostatUZH/R/faganPlot.R biostatUZH/R/formatCI.R biostatUZH/R/formatPercent.R biostatUZH/R/formatPval.R biostatUZH/R/is.wholenumber.R biostatUZH/R/jeffrey.R biostatUZH/R/jeffreys.R biostatUZH/R/lamAlpha.R biostatUZH/R/logit.R biostatUZH/R/mantelCoxHR.R biostatUZH/R/mantelHaenszel.R biostatUZH/R/plotcorr.R biostatUZH/R/populationSamplePlot.R biostatUZH/R/quantileCumInc.R biostatUZH/R/quantileKM.R biostatUZH/R/rootFct.R biostatUZH/R/sampleSizeMcNemar.R biostatUZH/R/sampleSizePhase2BinaryTest.R biostatUZH/R/sampleSizePhase2BinaryTestSimulated.R biostatUZH/R/sampleSizeWilcoxTwoSample.R biostatUZH/R/standardErrorAUC.R biostatUZH/R/summaryROC.R biostatUZH/R/survrep.R biostatUZH/R/tableRegression.R biostatUZH/R/wald.R biostatUZH/R/wilson.R
biostatUZH/build
biostatUZH/build/vignette.rds
biostatUZH/data
biostatUZH/data/fischdaten.rda
biostatUZH/data/larynx.rda
biostatUZH/inst
biostatUZH/inst/NEWS.Rd
biostatUZH/inst/doc
biostatUZH/inst/doc/aucbinormal.Rnw
biostatUZH/inst/doc/aucbinormal.pdf
biostatUZH/inst/doc/weibull.R
biostatUZH/inst/doc/weibull.Rnw
biostatUZH/inst/doc/weibull.pdf
biostatUZH/man
biostatUZH/man/BlandAltman.Rd biostatUZH/man/ConvertWeibull.Rd biostatUZH/man/WeibullDiag.Rd biostatUZH/man/WeibullReg.Rd biostatUZH/man/biostatUZH-package.Rd biostatUZH/man/computeICCrater.Rd biostatUZH/man/confIntAUC.Rd biostatUZH/man/confIntAUCbinorm.Rd biostatUZH/man/confIntDiagnostic.Rd biostatUZH/man/confIntFisherTrafo.Rd biostatUZH/man/confIntICC.Rd biostatUZH/man/confIntIndependentDiagnostic.Rd biostatUZH/man/confIntIndependentProportion.Rd biostatUZH/man/confIntKM_t0.Rd biostatUZH/man/confIntKappa.Rd biostatUZH/man/confIntMedian.Rd biostatUZH/man/confIntPairedDiagnostic.Rd biostatUZH/man/confIntPairedProportion.Rd biostatUZH/man/confIntProportion.Rd biostatUZH/man/confIntRiskDiff.Rd biostatUZH/man/confIntRiskRatio.Rd biostatUZH/man/faganPlot.Rd biostatUZH/man/fischdaten.Rd biostatUZH/man/formatCI.Rd biostatUZH/man/formatPercent.Rd biostatUZH/man/formatPval.Rd biostatUZH/man/larynx.Rd biostatUZH/man/logit.Rd biostatUZH/man/mantelCoxHR.Rd biostatUZH/man/mantelHaenszel.Rd biostatUZH/man/plotcorr.Rd biostatUZH/man/populationSamplePlot.Rd biostatUZH/man/quantileCumInc.Rd biostatUZH/man/quantileKM.Rd biostatUZH/man/sampleSizeMcNemar.Rd biostatUZH/man/sampleSizePhase2BinaryTest.Rd biostatUZH/man/sampleSizeWilcoxTwoSample.Rd biostatUZH/man/standardErrorAUC.Rd biostatUZH/man/summaryROC.Rd biostatUZH/man/survrep.Rd biostatUZH/man/tableRegression.Rd
biostatUZH/vignettes
biostatUZH/vignettes/aucbinormal.Rnw
biostatUZH/vignettes/aucbinormal.bib
biostatUZH/vignettes/ims.bst
biostatUZH/vignettes/weibull.Rnw
biostatUZH/vignettes/weibull.bib

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.