R Observatory: Metrics for SIMMS version 1.3.2

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

SIMMS

1.3.2

Subnetwork Integration for Multi-Modal Signatures

0packages depend

2.9Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Syed HaiderFirst published 2013-06-1111 releasesCRAN page ↗

Algorithms to create prognostic biomarkers using biological genesets or networks.

Install

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

install.packages("SIMMS", 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-simms

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

# 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-SIMMS

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-SIMMS

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

13OK

Slowest check: 2.9 min · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

6

Dependencies · direct

Check history

OK2026-08-05
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 99%
Return-value docs: 100%
References docs: 0%

Downloads

2.9K

CRAN downloads in the past year

Rank #15,062 · ~8/day · ~242/mo

Releases R versions

Daily download trend is not available in this view yet.

18830 days

70890 days

2.9K1 year

Compare downloads with other packages →

Also on106 r2u25 autocran27 c2d4u

Dependencies

Declared dependencies

7 external dependencies (excludes base and recommended)

Depends (6)

R >= 3.2.0survivalMASSglmnet doParallel foreach

Imports (1)

randomForestSRC

LinkingTo (0)

none

Suggests (3)

knitr rmarkdown xtable

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (3)

Maintainer (1)

Syed Haider

Author, Maintainer

Authors (2)

Syed Haider

Author, Maintainer

Paul C. Boutros

Author

Contributors (1)

Michal Grzadkowski

Contributor

Package Timeline

11 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
R
R 4.3.0 released · 2023-04-21
1.3.2Latest
2022-04-24 · current release · diff ↗
unarchivedReturned to CRAN
2022-04-24
R
R 4.2.0 released · 2022-04-22
archivedRemoved from CRAN
2022-02-23
requires archived package 'randomForestSRC'
R
R 4.1.0 released · 2021-05-18
1.3.1
2021-01-07 · diff ↗
1.3.0
2020-06-06 · diff ↗
unarchivedReturned to CRAN
2020-06-06
R
R 4.0.0 released · 2020-04-24
archivedRemoved from CRAN
2020-03-29
check problems were not corrected in time
1.2.0
2019-05-05 · diff ↗
R
R 3.6.0 released · 2019-04-26

Show 13 earlier events

1.1.2
2019-03-07 · diff ↗
R
R 3.5.0 released · 2018-04-23
1.1.1
2017-10-11 · diff ↗
1.1.0
2017-09-06 · diff ↗
R
R 3.4.0 released · 2017-04-21
R
R 3.3.0 released · 2016-05-03
1.0.2
2015-09-21 · diff ↗
R
R 3.2.0 released · 2015-04-16
1.0.1
2015-02-22 · diff ↗
1.0.0
2015-02-16 · diff ↗
R
R 3.1.0 released · 2014-04-10
0.0.1
2013-06-11
R
R 3.0.0 released · 2013-04-03

Package metadata

First published: 2013-06-11
Total releases: 11 / 13 yrs
License: GPL-2 OSI
Minimum R: ≥ 3.2.0
Download size: 362 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Genomics, Proteomics, Metabolomics, Transcriptomics, and Other Omics

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("SIMMS")

Format

Haider, S., C. Boutros, P., & Grzadkowski, M. (2022). SIMMS: Subnetwork Integration for Multi-Modal Signatures (Version 1.3.2) [Computer software]. https://doi.org/10.32614/CRAN.package.SIMMS

This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.

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 SIMMS version 1.3.2 [Data set]. HJJB, LLC. Data release v2026-08-23. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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