R Observatory: Metrics for SimReg version 3.4

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

SimReg

3.4

Similarity Regression

0packages depend

2.6Kdownloads / year

–test coverage

11/13checks pass

Overview

About

Maintained by Daniel GreeneFirst published 2015-08-278 releasesCRAN page ↗

Similarity regression, evaluating the probability of association between sets of ontological terms and binary response vector. A no-association model is compared with one in which the log odds of a true response is linked to the semantic similarity between terms and a latent characteristic ontological profile - 'Phenotype Similarity Regression for Identifying the Genetic Determinants of Rare Diseases', Greene et al 2016 doi:10.1016/j.ajhg.2016.01.008.

Install

R (CRAN)Ubuntu (r2u)

install.packages("SimReg", 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-simreg

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled.

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

Health

CRAN checks

2NOTE11OK

Failing flavors

NOTE r-devel-linux-x86_64-debian-clang
NOTE r-devel-linux-x86_64-debian-gcc

Slowest check: 3.9 min · r-devel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

4

Dependencies · direct

Check history

NOTE2026-04-22
12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-04-18
11 OK · 2 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-03-10
12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: not tracked
Documented parameters: 99%
Return-value docs: 78%
References docs: 7%

Downloads

2.6K

CRAN downloads in the past year

Rank #16,633 · ~7/day · ~217/mo

Releases R versions

Daily download trend is not available in this view yet.

16130 days

66090 days

2.6K1 year

Compare downloads with other packages →

Also on381 r2u

Dependencies

Declared dependencies

7 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.0.0

Imports (4)

Rcpp ontologyIndex ontologySimilarity ontologyPlot

LinkingTo (1)

Rcpp

Suggests (2)

knitr rmarkdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (0)

Author records are not tracked yet for this package.

Listed in earlier versions (1)

Daniel Greene

no longer listed · 1.1 to 3.4

Package Timeline

8 releases. Pick two to compare their code metrics. R releases are shown for context.

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
3.4Latest
2024-02-21 · current release · diff ↗
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
3.3
2021-02-15 · diff ↗
unarchivedReturned to CRAN
2021-02-15
archivedRemoved from CRAN
2021-01-30
check problems were not corrected in time Unconditional use of cairo-based devices
R
R 4.0.0 released · 2020-04-24
R
R 3.6.0 released · 2019-04-26
R
R 3.5.0 released · 2018-04-23
R
R 3.4.0 released · 2017-04-21
3.0
2016-10-15 · diff ↗
2.1
2016-08-16 · diff ↗

Show 6 earlier events

R
R 3.3.0 released · 2016-05-03
1.4
2016-03-06 · diff ↗
1.3
2016-01-13 · diff ↗
1.2
2015-09-15 · diff ↗
1.1
2015-08-27
R
R 3.2.0 released · 2015-04-16

Package metadata

First published: 2015-08-27
Total releases: 8 / 11 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 3.0.0
Download size: 70 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("SimReg")

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 SimReg version 3.4 [Data set]. HJJB, LLC. Data release v2026-08-24. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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