CARNIVAL
Bioc currentA CAusal Reasoning tool for Network Identification (from gene expression data) using Integer VALue programming
Release Lineage
Entered 3.11 · Apr 28, 2020
Current · Requires R 4.6
Description
An upgraded causal reasoning tool from Melas et al in R with updated assignments of TFs' weights from PROGENy scores. Optimization parameters can be freely adjusted and multiple solutions can be obtained and aggregated.
Test coverage
Line coverage
–
Expression
–
Tests / Examples
–
Functions
99 16 exported
Complexity
2.4 avg / 12 max
Call network
99 nodes / 136 edges
Test coverage is not measured for Bioconductor packages; nodes fall back to a neutral fill.
Call graph
Open call graph →Lowest coverage
Per-function coverage is not measured for this package yet.
Code
Structure
Lines of code
8,125
Files
178
Compiled share
0%
Has compiled src
No
Language breakdown
API
Exported functions
16
Internal functions
83
Testing & CI
Has tests
Yes
Test-to-code ratio
0.70
testthat edition
3
CI present
Yes
CI type
["github-actions"]
PR gated
Yes
Docs
Roxygen coverage
100%
Health & Security signals
Informational signals; not verdicts.
on.exit coverage
0%
Unsafe pattern score
10
Dep constraint coverage
0%
Secret pattern count
0
Bundled 3rd-party code
2 items
Portability & License
Min R version
4.0
System requirements
–
C++ standard
–
License
GPL-3
License flags
SPDX valid, OSI approved
History
Versions
13
First release
2020-04-27
Latest release
2026-04-28
Avg cadence
182 days
Cold removal rate
–
Dep drift
14
LOC over versions
Per-file churn detail lives in the source pipeline: https://github.com/r-observatory/bioc-code-metrics.
Documentation
- Examples that run
- 100%
- Documented parameters
- 100%
- Return-value docs
- 100%
- References docs
- 0%
Topics
Depended on by (2)
People
- Attila Gabor maintainer
- Aurelien Dugourd contributor
- Enio Gjerga author
- Olga Ivanova author
- Anika Liu contributor
- Nikolas Peschke contributor
- Panuwat Trairatphisan author
- Alberto Valdeolivas contributor
Cite
Cite this package
Run in R for the authors' preferred citation:
citation("CARNIVAL")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.
From data release v2026-08-26, which the citation names so these numbers can be found later. More on citing and the projects behind them.