R Observatory: Metrics for YPPE version 1.0.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

YPPE

1.0.1Package record

Yang and Prentice Model with Piecewise Exponential Baseline Distribution

0packages depend

2.7Kdownloads / year

46.0%test coverage

9/13flavors OK

Overview

About

Maintained by Fabio DemarquiCRAN page ↗GitHub ↗Issues ↗

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 (2019) arXiv:1910.02406. Model fitting carried out via likelihood-based and Bayesian approaches. The package also provides point and interval estimation for the crossing survival times.

Changes in 1.0.1

New features

coef() function to extract the regression coefficientes under the MLE approach
vcov() function to compute the variance-covariance matrix associated with the regression coefficients under the MLE approach
confint() function to compute the 100(1-alpha)% confidence intervals under the MLE approahc

Bug fixes

yppe() function now works properly if both the number of intervals and the time grid (n_int and rho) are passed as arguments; the default time grid is now computed by using all distinct observed failure times as the endpoints of the intervals

---

From NEWS.md in the release

Install

R (CRAN)pak (dev)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

install.packages("YPPE", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("fndemarqui/YPPE")

Development version from fndemarqui/YPPE. Installs pak first if it is not already available.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-yppe

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

bspm (used by r2u) also needs make: sudo apt install make

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-YPPE

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-YPPE

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed). We list this channel from recorded autoCRAN download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

Health

CRAN checks

4NOTE9OK

Check messages

NOTECRAN incoming feasibilityr-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Maintainer: ‘Fabio Demarqui <fndemarqui@est.ufmg.br>’

The Description field contains
  Mayrink (2019) <arXiv:1910.02406>. Model fitting carried out via
Please refer to arXiv e-prints via their arXiv DOI <doi:10.48550/arXiv.YYMM.NNNNN>.

NOTEdependencies in R coder-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Namespace in Imports field not imported from:
  ‘rstantools’
All declared Imports should be used.

CRAN check page ↗

Slowest check: 11.3 min · r-oldrel-windows-x86_64

Status changes

NOTE9 OK, 4 NOTE2026-07-29
ERROR8 OK, 4 NOTE, 1 ERROR2026-07-27
NOTE7 OK, 7 NOTE2026-04-22
ERROR6 OK, 7 NOTE, 1 ERROR2026-04-18
NOTE7 OK, 7 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.0.1

README· In the repository, left out of the releaseVignettesNoNEWSYes · 67% structured · mentions 1.0.1Citation fileNo

Help pages: 17includes a package overview page
Examples that run: 0%3 only when donttest examples are enabled (R CMD check --as-cran)
Exported functions with examples: 14%
Documented parameters: 92%
Return-value docs: 100%
Help pages citing references: 18%

How these are measured

Downloads

2.7K

CRAN downloads in the past year

Rank #14,404 · ~7/day · ~223/mo

Releases R versions

Daily download trend is not available in this view yet.

32930 days

83190 days

2.7K1 year

Compare downloads with other packages →

Also on337 r2u2 autocran

How downloads are counted

Repository

fndemarqui/yppe ↗Account: fndemarqui

4Stars

1Forks

0Open issues

1Open PRs

0Releases

50Commits

1Commit identities

50 commits · Last activity 2023-10-17 · 0% stars, 30d · Default branch at 1.1.0, ahead of CRAN 1.0.1 (checked 2026-10-22)

Responsiveness

How these are sampled

PRs merged (all time): 0%
Median days to close, 50 most recently updated closed issues: not measured
Median days to close, 50 most recently updated closed PRs: 74

Stars over time

2025-09-11 · 42026-07-07 · 4

How these are measured

PracticesBeta

9 development-tooling and community-health practices detected across 4 families in the upstream repository

Checks run against github.com/fndemarqui/yppe on 2026-10-22.

Continuous integration (3)

GitHub ActionsR CMD check workflowTravis CI (config file)

The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel

Docs source (4)

README.Rmdpkgdown

GitHub Pages site last deployed 2023-10-17 · The repository has a site deploy workflow

CRAN release process (1)

cran-comments.md

Lint, format, editor (1)

RStudio project

How this is detected·Detection ruleset v4 (2026-10-20)

Dependencies

Declared dependencies

10 external dependencies (excludes base and recommended)

Installing YPPE adds 49 packages (22 with compiled code, 44 MB of source tarballs). Heaviest: BH 14 MB, ggplot2 6.0 MB, loo 2.7 MB.

Depends (2)

R >= 3.4.0survival

Imports (6)

methodsMASSFormula Rcpp rstan rstantools

LinkingTo (5)

BH Rcpp RcppEigen rstan StanHeaders

Suggests (1)

testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (1)

Fabio Demarqui

Author, Maintainer since 1.0.0 (2019)

Releases (2)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24
1.0.1Latest
record
2020-01-09 · current release · diff ↗ ·
added 3 exports
coef, confint, vcov
1.0.0
record
2019-10-09
R
R 3.6.0 released · 2019-04-26

Package metadata

First published: 2019-10-09
Total releases: 2 / 7 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 3.4.0
Bundled data: 5.7 KB / 2 files
Download size: 34 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("YPPE")

Format

Demarqui, F. (2020). YPPE: Yang and Prentice Model with Piecewise Exponential Baseline Distribution (Version 1.0.1) [Computer software]. https://doi.org/10.32614/CRAN.package.YPPE

This package has no citation file, so citation() returns this entry built from DESCRIPTION.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for YPPE version 1.0.1 [Data set]. HJJB, LLC. Data release v2026-10-25. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-25, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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