R Observatory: Metrics for CoNI version 0.1.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

CoNI

0.1.0

Correlation Guided Network Integration (CoNI)

0packages depend

3.2Kdownloads / year

–test coverage

0/13checks pass

Overview

About

Maintained by José Manuel Monroy KuhnFirst published 2021-09-301 releasesCRAN page ↗

Integrates two numerical omics data sets from the same samples using partial correlations. The output can be represented as a network, bipartite graph or a hypergraph structure. The method used in the package refers to Klaus et al (2021) doi:10.1016/j.molmet.2021.101295.

Install

R (CRAN)Ubuntu (r2u)

install.packages("CoNI", 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-coni

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

13NOTE

Failing flavors

NOTE r-devel-linux-x86_64-debian-clang
NOTE r-devel-linux-x86_64-debian-gcc
NOTE r-devel-linux-x86_64-fedora-clang
NOTE r-devel-linux-x86_64-fedora-gcc
NOTE r-devel-windows-x86_64
NOTE r-oldrel-macos-arm64
NOTE r-oldrel-macos-x86_64
NOTE r-oldrel-windows-x86_64
NOTE r-patched-linux-x86_64
NOTE r-release-linux-x86_64
NOTE r-release-macos-arm64
NOTE r-release-macos-x86_64
NOTE r-release-windows-x86_64

Slowest check: 7.0 min · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

20

Dependencies · direct

Check history

NOTE2026-06-27
0 OK · 13 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-21
0 OK · 12 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-06-09
0 OK · 13 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
0 OK · 12 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
NOTE2026-03-10
0 OK · 14 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 24%

Downloads

3.2K

CRAN downloads in the past year

Rank #12,542 · ~9/day · ~271/mo

Releases R versions

Daily download trend is not available in this view yet.

23730 days

79690 days

3.2K1 year

Compare downloads with other packages →

Also on133 r2u

Dependencies

Declared dependencies

22 external dependencies (excludes base and recommended)

Depends (1)

R >= 4.0

Imports (20)

igraph doParallel cocor ggplot2 forcats dplyr data.table tibble foreach genefilter ggrepel gplots gridExtra plyr ppcor tidyr (>= 1.1.3)Hmiscmethodsrlang (>= 0.4.10)tidyselect

LinkingTo (0)

none

Suggests (3)

kableExtra knitr rmarkdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (3)

Maintainer (1)

José Manuel Monroy Kuhn

Author, Maintainer

Authors (1)

José Manuel Monroy Kuhn

Author, Maintainer

Contributors (1)

Valentina Klaus

Contributor

Other (1)

Dominik Lutter

Thesis advisor

Package Timeline

1 release. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
0.1.0Latest
2026-03-10 · current release
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2021-09-30
Total releases: 1 / 5 yrs
License: GPL-3 OSI
Minimum R: ≥ 4.0
Bundled data: 611 KB / 12 files
Download size: 944 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("CoNI")

Format

Monroy Kuhn, J. M., Klaus, V., & Lutter, D. (2021). CoNI: Correlation Guided Network Integration (CoNI) (Version 0.1.0) [Computer software]. https://doi.org/10.32614/CRAN.package.CoNI

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 CoNI version 0.1.0 [Data set]. HJJB, LLC. Data release v2026-08-18. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-18, which the citation names so these numbers can be found later. More on citing and the projects behind them.

Report a problem with this page →