R Observatory: Metrics for Cascade version 2.4

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

Cascade

2.4

Selection, Reverse-Engineering and Prediction in Cascade Networks

1packages depend

5.1Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Frederic BertrandFirst published 2019-02-187 releasesCRAN page ↗GitHub ↗

A modeling tool allowing gene selection, reverse engineering, and prediction in cascade networks. Jung, N., Bertrand, F., Bahram, S., Vallat, L., and Maumy-Bertrand, M. (2014) doi:10.1093/bioinformatics/btt705.

Install

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

install.packages("Cascade", 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("fbertran/Cascade")

Development version from fbertran/Cascade. 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-cascade

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

13OK

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

Code health

Yes

Tests · ratio 0.03

not tracked

Coverage

100%

Documentation · exports

13

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
OK2026-05-07
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
WARNING2026-03-29
13 OK · 0 NOTE · 1 WARNING · 0 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 493 wordsVignettesNopkgdown siteNoNEWSYes · 67% structuredCode of conductNoContributing guideNo

Examples that run: 85%
Documented parameters: 100%
Return-value docs: 100%
References docs: 44%

Downloads

5.1K

CRAN downloads in the past year

Rank #5,355 · ~14/day · ~428/mo

Releases R versions

Daily download trend is not available in this view yet.

27530 days

1.5K90 days

5.1K1 year

Compare downloads with other packages →

Also on225 r2u25 c2d4u

Repository

GitHub ↗ fbertran/cascade

1Stars

1Forks

1Open issues

1Open PRs

3Releases

54Commits

1Contributors

54 commits · Last activity 2026-04-30

Stars over time

2014-04-04 · 12026-07-07 · 1

Repository practices

Upstream repositoryBeta

3 development-tooling and community-health practices detected across 3 families in the upstream repository

Checks run against github.com/fbertran/cascade on 2026-08-09.

Continuous integration (1)

GitHub Actions

Docs source (1)

README.Rmd

Lint, format, editor (1)

RStudio project

How this is detected·Detection ruleset v1 (2026-07-18)

Dependencies

Declared dependencies

12 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.5.0

Imports (13)

abind animationclusterigraph larslatticelimmamethodsnnlssplinesstats4tnet VGAM

LinkingTo (0)

none

Suggests (4)

R.rsp CascadeData knitr testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

3indirect

SelectBoost

Code & Tests

People & History

People (4)

Maintainer (1)

Frederic Bertrand

Maintainer, Author

Authors (2)

Frederic Bertrand

Maintainer, Author

Myriam Maumy-Bertrand

Author

Contributors (2)

Nicolas Jung

Contributor

Laurent Vallat

Contributor

Package Timeline

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

2.4Latest
2026-04-30 · current release · diff ↗
R
R 4.6.0 released · 2026-04-24
2.3
2025-09-19 · diff ↗
2.2
2025-08-21 · 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
2.1
2022-11-28 · diff ↗
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
2.0
2021-03-19 · diff ↗
R
R 4.0.0 released · 2020-04-24
1.8
2019-08-24 · diff ↗
R
R 3.6.0 released · 2019-04-26
1.7
2019-02-18
R
R 3.5.0 released · 2018-04-23

Package metadata

First published: 2019-02-18
Total releases: 7 / 7 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 3.5.0
Bundled data: 132 KB / 6 files
Download size: 1.9 MB for 2.3
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Network Analysis Genomics, Proteomics, Metabolomics, Transcriptomics, and Other Omics

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("Cascade")

Format

Bertrand, F., Jung, N., Maumy-Bertrand, M., & Vallat, L. (2026). Cascade: Selection, Reverse-Engineering and Prediction in Cascade Networks (Version 2.4) [Computer software]. https://doi.org/10.32614/CRAN.package.Cascade

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 Cascade version 2.4 [Data set]. HJJB, LLC. Data release v2026-08-15. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-15, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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