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-4.5)YPPE_1.1.0.zip(r-4.4)YPPE_1.1.0.zip(r-4.3)
YPPE_1.1.0.tgz(r-4.5-x86_64)YPPE_1.1.0.tgz(r-4.5-arm64)YPPE_1.1.0.tgz(r-4.4-x86_64)YPPE_1.1.0.tgz(r-4.4-arm64)YPPE_1.1.0.tgz(r-4.3-x86_64)YPPE_1.1.0.tgz(r-4.3-arm64)
YPPE_1.1.0.tar.gz(r-4.5-noble)YPPE_1.1.0.tar.gz(r-4.4-noble)
YPPE.pdf |YPPE.html✨
YPPE/json (API)
NEWS

# 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 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:

cpp

4.48 score 3 stars 8 scripts 130 downloads 13 exports 59 dependencies

Last updated 1 years agofrom:e733475087. Checks:1 OK, 10 NOTE. Indexed: yes.

Target	Result	Latest binary
Doc / Vignettes	OK	Feb 23 2025
R-4.5-win-x86_64	NOTE	Feb 23 2025
R-4.5-mac-x86_64	NOTE	Feb 23 2025
R-4.5-mac-aarch64	NOTE	Feb 23 2025
R-4.5-linux-x86_64	NOTE	Feb 23 2025
R-4.4-win-x86_64	NOTE	Feb 23 2025
R-4.4-mac-x86_64	NOTE	Feb 23 2025
R-4.4-mac-aarch64	NOTE	Feb 23 2025
R-4.3-win-x86_64	NOTE	Feb 23 2025
R-4.3-mac-x86_64	NOTE	Feb 23 2025
R-4.3-mac-aarch64	NOTE	Feb 23 2025

Exports:crossTime dpexp hpexp Hpexp phpe pope ppexp qpexp rates rpexp rsurv timeGrid yppe

Dependencies:abind backports BH callr checkmate cli colorspace desc distributional dplyr fansi farver Formula generics ggplot2 glue gridExtra gtable inline isoband labeling lattice lifecycle loo magrittr MASS Matrix matrixStats mgcv munsell nlme numDeriv pillar pkgbuild pkgconfig posterior processx ps QuickJSR R6 rbibutils RColorBrewer Rcpp RcppEigen RcppParallel Rdpack rlang rstan rstantools scales StanHeaders survival tensorA tibble tidyselect utf8 vctrs viridisLite withr

Introduction to the package YPPE

Rendered fromYPPE.Rmdusingknitr::rmarkdownon Feb 23 2025.

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

Likelihood ratio test using the anova.yppe() function

Rendered fromanova.Rmdusingknitr::rmarkdownon Feb 23 2025.

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

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
The 'YPPE' package.	YPPE-package YPPE
Akaike information criterion	AIC.yppe
anova method for yppe models	anova.yppe
Estimated regression coefficients	coef.yppe
Confidence intervals for the regression coefficients	confint.yppe
Generic S3 method crossTime	crossTime
Computes the crossing survival times	crossTime.yppe
Gastric cancer data set	gastric
IRESSA Pan-Asia Study (IPASS) data set	ipass
Extract Log-Likelihood	logLik.yppe
Model.matrix method for yppe models	model.matrix.yppe
Hazard and cumulative hazard functions of the PE distribution	Hpexp 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 output	print.summary.phpe
Print the summary.pope output	print.summary.pope
Print the summary.yppe output	print.summary.yppe
Generic S3 method rates	rates
Estimated failure rates for the PE distribution	rates.phpe
Estimated failure rates for the PE distribution	rates.pope
Estimated failure rates for the PE distribution	rates.yppe
Random generation of survival data	rsurv
Summary for the yppe model	summary.phpe
Summary for the yppe model	summary.pope
Summary for the yppe model	summary.yppe
survfit method for phpe models	survfit.phpe
survfit method for pope models	survfit.pope
survfit method for yppe models	survfit.yppe
Time grid	timeGrid
Variance-covariance matrix for a yppe model	vcov.yppe vcov.ypppe
yppe: Fit the Yang and Prentice Regression Model with Piecewise Exponential baseline distribution.	yppe {yppe}