R Observatory: Metrics for CascadeData version 1.6

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

CascadeData

1.6

Experimental Data of Cascade Experiments in Genomics

3packages depend

4Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Frederic BertrandFirst published 2019-02-075 releasesCRAN page ↗GitHub ↗

These experimental expression data (5 leukemic 'CLL' B-lymphocyte of aggressive form from 'GSE39411', doi:10.1073/pnas.1211130110), after B-cell receptor stimulation, are used as examples by packages such as the 'Cascade' one, 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)Fedora (COPR)openSUSE (OBS)

install.packages("CascadeData", 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/CascadeData")

Development version from fbertran/CascadeData. 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-cascadedata

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-CascadeData

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-CascadeData

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

Health

CRAN checks

13OK

Slowest check: 54 s · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 1.31

not tracked

Coverage

0

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
OK2026-07-16
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
WARNING2026-07-15
12 OK · 0 NOTE · 1 WARNING · 0 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 547 wordsVignettesNopkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: not tracked
Return-value docs: not tracked
References docs: 100%

Downloads

4K

CRAN downloads in the past year

Rank #11,626 · ~11/day · ~337/mo

Releases R versions

Daily download trend is not available in this view yet.

21330 days

85290 days

4K1 year

Compare downloads with other packages →

Also on340 r2u17 autocran27 c2d4u

Repository

GitHub ↗ fbertran/cascadedata

1Stars

0Forks

0Open issues

0Open PRs

3Releases

23Commits

1Contributors

23 commits · Last activity 2025-09-19

Stars over time

2019-01-31 · 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/cascadedata on 2026-08-16.

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

1 external dependency (excludes base and recommended)

Depends (1)

R >= 2.10

Imports (0)

none

LinkingTo (0)

none

Suggests (1)

testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

3direct

0indirect

Cascade Patterns SelectBoost

Code & Tests

Datasets

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

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

R
R 4.6.0 released · 2026-04-24
1.6Latest
2025-09-19 · current release · diff ↗
1.5
2025-08-22 · 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
1.4
2022-11-28 · diff ↗
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
1.3
2021-03-19 · diff ↗
R
R 4.0.0 released · 2020-04-24
R
R 3.6.0 released · 2019-04-26
1.2
2019-02-07
R
R 3.5.0 released · 2018-04-23

Package metadata

First published: 2019-02-07
Total releases: 5 / 7 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 2.10
Bundled data: 4.1 MB / 3 files
Download size: 4.1 MB
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("CascadeData")

Format

Bertrand, F., Jung, N., Maumy-Bertrand, M., & Vallat, L. (2025). CascadeData: Experimental Data of Cascade Experiments in Genomics (Version 1.6) [Computer software]. https://doi.org/10.32614/CRAN.package.CascadeData

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 CascadeData version 1.6 [Data set]. HJJB, LLC. Data release v2026-08-17. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-17, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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