R Observatory: Metrics for hdnom version 6.2.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

hdnom

6.2.1Package record

Benchmarking and Visualization Toolkit for Penalized Cox Models

2packages depend

6.1Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Nan XiaoCRAN page ↗GitHub ↗Website ↗Issues ↗

Creates nomogram visualizations for penalized Cox regression models, with the support of reproducible survival model building, validation, calibration, and comparison for high-dimensional data.

Changes in 6.2.1

Bug fixes

Updated a structure() call to use names instead of the deprecated special name .Names, fixing an R-devel check note (#30).

From NEWS.md in the release

Install

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

install.packages("hdnom", 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("nanxstats/hdnom")

Development version from nanxstats/hdnom. 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-hdnom

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-hdnom

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-hdnom

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: 9.5 min · r-oldrel-macos-x86_64

Status changes

OK13 OK2026-08-05
NOTE11 OK, 2 NOTE2026-07-16
OK13 OK2026-05-17
ERROR11 OK, 2 ERROR2026-05-05
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 6.2.1

READMEYes · 151 wordsVignettesYes · 1 · dynamicNEWSYes · 100% structured · mentions 6.2.1Citation fileYes · cites a publicationWebsiteYes · pkgdown

Help pages: 74 (24 internal)includes a package overview page
Examples that run: 92%45 run in a plain check · 4 only when donttest examples are enabled (R CMD check --as-cran)
Exported functions with examples: 96%
Documented parameters: 99%
Return-value docs: 27%
Help pages citing references: 7%

Vignettes (1)

An Introduction to hdnom

How these are measured

Downloads

6.1K

CRAN downloads in the past year

Rank #4,982 · ~17/day · ~511/mo

Releases R versions

Daily download trend is not available in this view yet.

61030 days

1.7K90 days

6.1K1 year

Compare downloads with other packages →

Also on442 r2u5 autocran199 c2d4u

How downloads are counted

Repository

nanxstats/hdnom ↗Account: nanxstats

47Stars

11Forks

1Open issues

0Open PRs

17Releases

244Commits

2Commit identities

high-dimensional-datasurvival-analysisbenchmarkpenalized-cox-modelslinear-regressionnomogram-visualization

License file reads as GPL-3.0 · 244 commits · Last activity 2026-07-28 · 0% stars, 30d

Responsiveness

How these are sampled

PRs merged (all time): 100%
Median days to close, 50 most recently updated closed issues: 0
Median days to close, 50 most recently updated closed PRs: 0

Stars over time

2025-10-09 · 452026-07-07 · 47

How these are measured

PracticesBeta

11 development-tooling and community-health practices detected across 5 families in the upstream repository

Checks run against github.com/nanxstats/hdnom on 2026-10-21.

Continuous integration (2)

GitHub ActionsR CMD check workflow

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

Governance and community (2)

Code of conductContributing guide

Docs source (4)

README.Rmdpkgdown

GitHub Pages site last deployed 2026-07-28 · The repository has a site deploy workflow

pkgdown site last built 2026-07-28

Reproducibility and dev environment (1)

data-raw/

Show all practicesHide 1 practice

Lint, format, editor (2)

lintrRStudio project

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

Dependencies

Declared dependencies

10 external dependencies (excludes base and recommended)

Installing hdnom adds 27 packages (13 with compiled code, 23 MB of source tarballs). Heaviest: ggplot2 6.0 MB, glmnet 2.7 MB, Rcpp 1.8 MB.

Depends (1)

R >= 3.5.0

Imports (7)

foreach ggplot2 glmnet gridExtra ncvreg penalizedsurvival

LinkingTo (0)

none

Suggests (4)

doParallel knitr ragg rmarkdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

2direct

0indirect

Depends 1 · Imports 1

Depends, Imports or LinkingTo, most downloaded first

gcomputation survivalSL

How these are counted

Code & Tests

Datasets

People & History

People (7)

Nan Xiao

Author, Maintainer since 1.2 (2015)

Miao-Zhu Li

Author · added in 5.0

Qing-Song Xu

Author · added in 5.0

Werner Adler

Contributor · added in 6.0.1

survAUC author

Frank Harrell

Contributor · added in 6.0.0

rms author

Sergej Potapov

Contributor · added in 6.0.1

survAUC author

Matthias Schmid

Contributor · added in 6.0.1

survAUC author

Listed in earlier versions (2)

Miaozhu Li

no longer listed · 1.2 to 4.9

Qingsong Xu

no longer listed · 4.5 to 4.9

Releases (21)

Pick two releases to compare their code metrics.

6.2.1Latest
record
2026-07-28 · current release · diff ↗
6.2.0
record
2026-05-12 · diff ↗
R
R 4.6.0 released · 2026-04-24
6.1.0
record
2025-06-09 · diff ↗
R
R 4.5.0 released · 2025-04-11
6.0.4
record
2024-09-05 · diff ↗
R
R 4.4.0 released · 2024-04-24
6.0.3
record
2024-03-03 · diff ↗
6.0.2
record
2023-04-24 · diff ↗
R
R 4.3.0 released · 2023-04-21
6.0.1
record
2022-05-18 · diff ↗
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
6.0.0
record
2019-06-23 · diff ↗ ·
removed 25 exports
glmnet.basesurv, glmnet.survcurve, hdcox.aenet, hdcox.alasso, hdcox.enet, hdcox.flasso, hdcox.lasso, hdcox.mcp, hdcox.mnet, hdcox.scad, hdcox.snet, hdnom.calibrate, hdnom.compare.calibrate, hdnom.compare.validate, hdnom.external.calibrate, hdnom.external.validate, hdnom.kmplot, hdnom.logrank, hdnom.nomogram, hdnom.validate, hdnom.varinfo, ncvreg.basesurv, ncvreg.survcurve, penalized.basesurv, penalized.survcurve

added 26 exports
as_nomogram, calibrate, calibrate_external, compare_by_calibrate, compare_by_validate, fit_aenet, fit_alasso, fit_enet, fit_flasso, fit_lasso, fit_mcp, fit_mnet, fit_scad, fit_snet, glmnet_basesurv, glmnet_survcurve, infer_variable_type, kmplot, logrank_test, ncvreg_basesurv, ncvreg_survcurve, penalized_basesurv, penalized_survcurve, theme_hdnom, validate, validate_external
R
R 3.6.0 released · 2019-04-26

Show 17 earlier eventsHide 17 earlier events

5.0
record
2018-05-14 · diff ↗ ·
added 6 exports
glmnet.basesurv, glmnet.survcurve, ncvreg.basesurv, ncvreg.survcurve, penalized.basesurv, penalized.survcurve
R
R 3.5.0 released · 2018-04-23
4.9
record
2017-09-29 · diff ↗
R
R 3.4.0 released · 2017-04-21
4.8
record
2017-03-25 · diff ↗
4.6
record
2017-01-08 · diff ↗
4.5
record
2016-12-25 · diff ↗
4.2
record
2016-10-22 · diff ↗
4.1
record
2016-08-05 · diff ↗
4.0
record
2016-07-05 · diff ↗
R
R 3.3.0 released · 2016-05-03
3.6
record
2016-03-25 · diff ↗
3.0
record
2016-01-04 · diff ↗ ·
added 7 exports
hdnom.compare.calibrate, hdnom.compare.validate, hdnom.external.calibrate, hdnom.external.validate, hdnom.kmplot, hdnom.logrank, hdnom.varinfo
2.1
record
2015-10-27 · diff ↗
2.0
record
2015-09-16 · diff ↗ ·
added 5 exports
hdcox.flasso, hdcox.mcp, hdcox.mnet, hdcox.scad, hdcox.snet
1.2
record
2015-08-28
R
R 3.2.0 released · 2015-04-16

Package metadata

First published: 2015-08-28
Total releases: 21 / 11 yrs
License: GPL (>= 3) OSI
Minimum R: ≥ 3.5.0
Bundled data: 258 KB / 2 files
Download size: 881 KB

Appears in task views

Survival Analysis

Cite

Cite this package

Run in R for the authors' entry:

citation("hdnom")

The package provides a citation file, so citation() returns the authors' own entry.

It points to 10.1101/065524.

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 hdnom version 6.2.1 [Data set]. HJJB, LLC. Data release v2026-10-24. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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