Package: YPPE 1.1.0

YPPE: Yang and Prentice Model with Piecewise Exponential Baseline Distribution

Semiparametric modeling of lifetime data with crossing survival curves via Yang and Prentice model with piecewise exponential baseline distribution. Details about the model can be found in Demarqui and Mayrink (2021) <doi:10.1214/20-BJPS471>. Model fitting carried out via likelihood-based and Bayesian approaches. The package also provides point and interval estimation for the crossing survival times.

Authors:Fabio Demarqui [aut, cre, cph]

YPPE_1.1.0.tar.gz
YPPE_1.1.0.zip(r-4.7)YPPE_1.1.0.zip(r-4.6)YPPE_1.1.0.zip(r-4.5)
YPPE_1.1.0.tgz(r-4.6-x86_64)YPPE_1.1.0.tgz(r-4.6-arm64)YPPE_1.1.0.tgz(r-4.5-x86_64)YPPE_1.1.0.tgz(r-4.5-arm64)
YPPE_1.1.0.tar.gz(r-4.7-arm64)YPPE_1.1.0.tar.gz(r-4.7-x86_64)YPPE_1.1.0.tar.gz(r-4.6-arm64)YPPE_1.1.0.tar.gz(r-4.6-x86_64)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
YPPE/json (API)

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

Bug tracker:https://github.com/fndemarqui/yppe/issues

Pkgdown/docs site:https://fndemarqui.github.io

Uses libs:
  • c++– GNU Standard C++ Library v3
Datasets:
  • gastric - Gastric cancer data set
  • ipass - IRESSA Pan-Asia Study (IPASS) data set

On CRAN:

Conda:

cpp

4.60 score 4 stars 8 scripts 191 downloads 13 exports 57 dependencies

Last updated from:e733475087. Checks:11 NOTE, 1 OK, 1 FAIL. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-arm64NOTE275
linux-devel-x86_64NOTE351
source / vignettesOK394
linux-release-arm64NOTE288
linux-release-x86_64NOTE303
macos-release-arm64NOTE253
macos-release-x86_64NOTE364
macos-oldrel-arm64NOTE221
macos-oldrel-x86_64NOTE338
windows-develNOTE300
windows-releaseNOTE339
windows-oldrelNOTE311
wasm-releaseFAIL166

Exports:crossTimedpexphpexpHpexpphpepopeppexpqpexpratesrpexprsurvtimeGridyppe

Dependencies:abindbackportsBHcallrcheckmateclicpp11descdistributionaldplyrfarverFormulagenericsggplot2gluegridExtragtableinlineisobandlabelinglatticelifecycleloomagrittrMASSMatrixmatrixStatsnumDerivotelpillarpkgbuildpkgconfigposteriorprocessxpsQuickJSRR6rbibutilsRColorBrewerRcppRcppEigenRcppParallelRdpackrlangrstanrstantoolsS7scalesStanHeaderssurvivaltensorAtibbletidyselectutf8vctrsviridisLitewithr

Introduction to the package YPPE
Rendered fromYPPE.Rmdusingknitr::rmarkdown

Last update: 2022-08-18
Started: 2022-08-17

Likelihood ratio test using the anova.yppe() function
Rendered fromanova.Rmdusingknitr::rmarkdown

Last update: 2022-08-18
Started: 2022-08-17

Readme and manuals

Help Manual

Help pageTopics
The 'YPPE' package.YPPE-package YPPE
Akaike information criterionAIC.yppe
anova method for yppe modelsanova.yppe
Estimated regression coefficientscoef.yppe
Confidence intervals for the regression coefficientsconfint.yppe
Generic S3 method crossTimecrossTime
Computes the crossing survival timescrossTime.yppe
Gastric cancer data setgastric
IRESSA Pan-Asia Study (IPASS) data setipass
Extract Log-LikelihoodlogLik.yppe
Model.matrix method for yppe modelsmodel.matrix.yppe
Hazard and cumulative hazard functions of the PE distributionHpexp hpexp pehaz
Probability function, distribution function, quantile function and random generation for the Piecewise Exponential (PE) distribution.dpexp pexp ppexp qpexp rpexp
phpe: Fit Proportional Hazards Regression Model with Piecewise Exponential baseline distribution.phpe {phpe}
pope: Fit Proportional Odds Regression Model with Piecewise Exponential baseline distribution.pope {pope}
Print the summary.phpe outputprint.summary.phpe
Print the summary.pope outputprint.summary.pope
Print the summary.yppe outputprint.summary.yppe
Generic S3 method ratesrates
Estimated failure rates for the PE distributionrates.phpe
Estimated failure rates for the PE distributionrates.pope
Estimated failure rates for the PE distributionrates.yppe
Random generation of survival datarsurv
Summary for the yppe modelsummary.phpe
Summary for the yppe modelsummary.pope
Summary for the yppe modelsummary.yppe
survfit method for phpe modelssurvfit.phpe
survfit method for pope modelssurvfit.pope
survfit method for yppe modelssurvfit.yppe
Time gridtimeGrid
Variance-covariance matrix for a yppe modelvcov.yppe vcov.ypppe
yppe: Fit the Yang and Prentice Regression Model with Piecewise Exponential baseline distribution.yppe {yppe}