DOI: 10.18129/B9.bioc.CARNIVAL  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see CARNIVAL.

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

Bioconductor version: 3.16

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.

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

Maintainer: Attila Gabor <attila.gabor at>

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HTML R Script Contextualizing large scale signalling networks from expression footprints with CARNIVAL
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biocViews GeneExpression, Network, Software, Transcriptomics
Version 2.8.0
In Bioconductor since BioC 3.11 (R-4.0) (3 years)
License GPL-3
Depends R (>= 4.0)
Imports readr, stringr, lpSolve, igraph, dplyr, tibble, tidyr, rjson, rmarkdown
Suggests RefManageR, BiocStyle, covr, knitr, testthat (>= 3.0.0), sessioninfo
Depends On Me
Imports Me cosmosR
Suggests Me dce
Links To Me
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