R Observatory: Metrics for swjm version 0.1.2

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

swjm

0.1.2Package record

Stagewise Variable Selection for Joint Models of Semi-Competing Risks

0packages depend

2Kdownloads / year

56.2%test coverage

13/13flavors OK

Overview

About

Maintained by Jared D. HulingCRAN page ↗

Implements stagewise regression for variable selection in joint models of recurrent events and terminal events (semi-competing risks). Supports two model frameworks: the joint frailty model (Cox-type) and the joint scale-change model (AFT-type). Provides cooperative lasso, lasso, and group lasso penalties with cross-validation for tuning parameter selection via cross-fitted estimating equations.

Changes in 0.1.2

Corrected the stagewise update directions under the scaled penalties. The argmax of the update objective over the scaled-penalty unit ball carries a factor 1/xi on every death-model coordinate (scaled lasso and mixed-sign cooperative branches: e_j sgn(g)/xi; group and same-sign cooperative branches: (g_a, g_b/xi^2)/||(g_a, g_b/xi)||_2). Earlier versions used unit-norm directions in rescaled gradient coordinates, which under-stepped the death-model block by the rescaling factor at every iteration and systematically over-shrank death-model coefficients.
The gradient-rescaling factor is now frozen at its initial value, so each fit emulates a single fixed scaled penalty and the solution paths are well behaved.

From NEWS.md in the release

Install

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

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

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

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-swjm

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-swjm

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-swjm

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

13OK

CRAN check page ↗

Slowest check: 5.6 min · r-devel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-07-31
OK11 OK2026-04-25
ERROR6 OK, 1 NOTE, 1 ERROR2026-04-22

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.1.2

READMEYes · 1,022 wordsVignettesYes · 1 · dynamicNEWSYes · 67% structured · mentions 0.1.2Citation fileNoWebsitenot declared in DESCRIPTION

Help pages: 57 (46 internal)includes a package overview page
Examples that run: 20%2 run in a plain check · 8 only when donttest examples are enabled (R CMD check --as-cran)
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 0%

Vignettes (1)

Stagewise Variable Selection for Joint Semi-Competing Risk Models

How these are measured

Downloads

2K

CRAN downloads in the past year

Rank #14,752 · ~6/day · ~169/mo

Releases R versions

Daily download trend is not available in this view yet.

27930 days

80090 days

2K1 year

Compare downloads with other packages →

Also on149 r2u8 autocran

How downloads are counted

Dependencies

Declared dependencies

8 external dependencies (excludes base and recommended)

Installing swjm adds 35 packages (19 with compiled code, 31 MB of source tarballs). Heaviest: ggplot2 6.0 MB, data.table 5.7 MB, optimx 2.2 MB.

Depends (1)

R >= 3.5.0

Imports (4)

RcppMatrixstatsreReg

LinkingTo (2)

Rcpp RcppArmadillo

Suggests (5)

testthatsurvivaltimeROC knitr rmarkdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

People & History

People (6)

Jared D. Huling

Author, Maintainer since 0.1.0 (2026)

Jue Hou

Author

Lingfeng Huo

Author

Ziren Jiang

Author

Sy Han (Steven) Chiou

Contributor

Chiung-Yu Huang

Contributor

Releases (2)

Pick two releases to compare their code metrics.

0.1.2Latest
record
2026-07-30 · current release · diff ↗
R
R 4.6.0 released · 2026-04-24
0.1.0
record
2026-04-21
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2026-04-21
Total releases: 2 / 1 yrs
License: GPL (>= 3) OSI
Minimum R: ≥ 3.5.0
Download size: 820 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("swjm")

Format

Huling, J. D., Chiou, S. H. (., Hou, J., Huang, C., Huo, L., & Jiang, Z. (2026). swjm: Stagewise Variable Selection for Joint Models of Semi-Competing Risks (Version 0.1.2) [Computer software]. https://doi.org/10.32614/CRAN.package.swjm

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 swjm version 0.1.2 [Data set]. HJJB, LLC. Data release v2026-10-18. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-18, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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