Package: CARNIVAL 2.23.0

Attila Gabor

CARNIVAL: A CAusal Reasoning tool for Network Identification (from gene expression data) using Integer VALue programming

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.

Authors:Enio Gjerga [aut], Panuwat Trairatphisan [aut], Anika Liu [ctb], Alberto Valdeolivas [ctb], Nikolas Peschke [ctb], Aurelien Dugourd [ctb], Attila Gabor [cre], Olga Ivanova [aut]

CARNIVAL_2.23.0.tar.gz
CARNIVAL_2.23.0.zip(r-4.7)CARNIVAL_2.23.0.zip(r-4.6)CARNIVAL_2.23.0.zip(r-4.5)
CARNIVAL_2.23.0.tgz(r-4.6-any)CARNIVAL_2.23.0.tgz(r-4.5-any)
CARNIVAL_2.23.0.tar.gz(r-4.7-any)CARNIVAL_2.23.0.tar.gz(r-4.6-any)
CARNIVAL_2.23.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
CARNIVAL/json (API)
NEWS

# Install 'CARNIVAL' in R:
install.packages('CARNIVAL', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/saezlab/carnival/issues

On BioConductor:CARNIVAL-2.23.0(bioc 3.24)CARNIVAL-2.22.0(bioc 3.23)

transcriptomicsgeneexpressionnetworkcausal-modelsfootprintsinteger-linear-programmingpathway-enrichment-analysis

9.50 score 62 stars 2 packages 121 scripts 569 downloads 7 mentions 16 exports 56 dependencies

Last updated from:19f1f66721. Checks:1 WARNING, 7 NOTE, 2 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksWARNING172
linux-devel-x86_64NOTE211
source / vignettesOK184
linux-release-x86_64NOTE293
macos-release-arm64NOTE111
macos-oldrel-arm64NOTE105
windows-develNOTE112
windows-releaseNOTE108
windows-oldrelNOTE93
wasm-releaseOK125

Exports:checkOptionsValiditydefaultCbcSolveCarnivalOptionsdefaultCplexCarnivalOptionsdefaultCplexSpecificOptionsdefaultLpSolveCarnivalOptionsgenerateLpFileCarnivalgetOptionsListgetSupportedSolversisInputValidCarnivalrunCARNIVALrunFromLpCarnivalrunInverseCarnivalrunVanillaCarnivalsetCarnivalOptionssuggestedCbcSpecificOptionssuggestedCplexSpecificOptions

Dependencies:base64encbitbit64bslibcachemclicliprcpp11crayondigestdplyrevaluatefastmapfontawesomefsgenericsgluehighrhmshtmltoolsigraphjquerylibjsonliteknitrlatticelifecyclelpSolvemagrittrMatrixmemoisemimepillarpkgconfigprettyunitsprogresspurrrR6rappdirsreadrrjsonrlangrmarkdownsassstringistringrtibbletidyrtidyselecttinytextzdbutf8vctrsvroomwithrxfunyaml

Contextualizing large scale signalling networks from expression footprints with CARNIVAL

Enio Gjerga, Matteo Spatuzzi, Olga Ivanova,

Rendered fromCARNIVAL.Rmdusingknitr::rmarkdownon Jun 11 2026.

Last update: 2022-03-09
Started: 2020-04-06