R Observatory: Metrics for iSubGen version 1.0.5

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

iSubGen

1.0.5Package record

Integrative Subtype Generation

0packages depend

3.1Kdownloads / year

–test coverage

12/13flavors OK

Overview

About

Maintained by Mao TianCRAN page ↗GitHub ↗Issues ↗

Multi-data type subtyping, which is data type agnostic and accepts missing data. Subtyping is performed using intermediary assessments created with autoencoders and similarity calculations. See Fox et al. (2024) doi:10.1016/j.crmeth.2024.100884 for details.

Install

R (CRAN)pak (dev)Ubuntu (r2u)

install.packages("iSubGen", 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("uclahs-cds/package-iSubGen")

Development version from uclahs-cds/package-iSubGen. 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-isubgen

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

Health

CRAN checks

1ERROR12OK

Check messages

ERRORpackage dependenciesr-oldrel-macos-arm64

Package required but not available: ‘ConsensusClusterPlus’

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.

CRAN check page ↗

Slowest check: 2.8 min · r-oldrel-macos-x86_64

Status changes

ERROR12 OK, 1 ERRORNow
ERROR12 OK, 2 ERROR2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.0.5

READMEYes · 1,134 wordsVignettesYes · 1 · dynamicNEWSYes · 100% structured · does not mention 1.0.5Citation fileNoWebsitenot declared in DESCRIPTION

Help pages: 11
Examples that run: 73%8 run in a plain check · 3 never run
Exported functions with examples: 100%
Documented parameters: not tracked
Return-value docs: not tracked
Help pages citing references: 0%

Vignettes (1)

Guide for using ISOpureR PDF

How these are measured

Downloads

3.1K

CRAN downloads in the past year

Rank #12,396 · ~9/day · ~260/mo

Releases R versions

Daily download trend is not available in this view yet.

27030 days

90490 days

3.1K1 year

Compare downloads with other packages →

Also on98 r2u

How downloads are counted

Repository

uclahs-cds/package-isubgen ↗Organization: uclahs-cds

1Stars

0Forks

5Open issues

1Open PRs

3Releases

171Commits

7Commit identities

License file reads as GPL-2.0 · 171 commits · Last activity 2026-01-20 · 0% stars, 30d · The default branch showed an older version (1.0.4) than CRAN on 2026-10-22

Responsiveness

How these are sampled

PRs merged (all time): 90%
Median days to close, 50 most recently updated closed issues: not measured
Median days to close, 50 most recently updated closed PRs: 12

Stars over time

2021-08-13 · 12026-07-07 · 1

How these are measured

PracticesBeta

2 development-tooling and community-health practices detected across 2 families in the upstream repository

Checks run against github.com/uclahs-cds/package-isubgen on 2026-10-22.

Continuous integration (1)

GitHub Actions

Governance and community (1)

PR template (inherited from uclahs-cds)

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

AI coding toolsBeta

This repository shows signs of AI coding tools.

GitHub Copilotfirst seen 2026-01-20
Pull request: opened by its own account

Review tools

Copilot code review
Commits: at least 1 accepting its review suggestions

Counts are commits, not lines of code. Commits by a tool's accounts count once across all of its accounts. Commits crediting it are the largest count among its credit lines, a minimum.How this is detected·Detection ruleset v4 (updated 2026-09-27)

Dependencies

Declared dependencies

6 external dependencies (excludes base and recommended)

Installing iSubGen adds 34 packages (19 with compiled code, 15 MB of source tarballs). Heaviest: keras 3.4 MB, tfruns 1.9 MB, Rcpp 1.8 MB. 1 more not on CRAN is not measured.

Depends (1)

R >= 3.2.3

Imports (5)

ConsensusClusterPlusclusterkeras tensorflow philentropy

LinkingTo (0)

none

Suggests (2)

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 (4)

Mao Tian

Maintainer since 1.0.4 (2026) · added in 1.0.4

Natalie Fox

Author · added in 1.0.4

Paul Boutros

Author · added in 1.0.4

Dan Knight

Contributor · added in 1.0.4

Previously maintained by Paul C Boutros (1.0.1) and Natalie Fox (1.0.0).

Releases (4)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
1.0.5Latest
record
2026-02-24 · current release · diff ↗
1.0.4
record
2026-01-24 · diff ↗
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
1.0.1
record
2021-04-22 · diff ↗
1.0.0
record
2021-04-15
R
R 4.0.0 released · 2020-04-24

Package metadata

First published: 2021-04-15
Total releases: 4 / 5 yrs
License: GPL-2 OSI
Additional repositories: bioc.r-universe.dev
Minimum R: ≥ 3.2.3
Download size: 2.1 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("iSubGen")

Format

Mao Tian, Dan Knight, Natalie Fox, & Paul Boutros. (2026). iSubGen: Integrative Subtype Generation (Version 1.0.5) [Computer software]. https://doi.org/10.32614/CRAN.package.iSubGen

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 iSubGen version 1.0.5 [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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