CellNOptR

DOI: 10.18129/B9.bioc.CellNOptR    

Training of boolean logic models of signalling networks using prior knowledge networks and perturbation data

Bioconductor version: Release (3.11)

This package does optimisation of boolean logic networks of signalling pathways based on a previous knowledge network and a set of data upon perturbation of the nodes in the network.

Author: T.Cokelaer, F.Eduati, A.MacNamara, S.Schrier, C.Terfve, E.Gjerga, A.Gabor

Maintainer: A.Gabor <attila.gabor at uni-heidelberg.de>

Citation (from within R, enter citation("CellNOptR")):

Installation

To install this package, start R (version "4.0") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("CellNOptR")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("CellNOptR")

 

PDF R Script Main vignette:Playing with networks using CellNOptR
PDF   Reference Manual
Text   NEWS

Details

biocViews CellBasedAssays, CellBiology, ImmunoOncology, Network, Pathways, Proteomics, Software, TimeCourse
Version 1.34.0
In Bioconductor since BioC 2.9 (R-2.14) (8.5 years)
License GPL-3
Depends R (>= 3.5.0), RBGL, graph, methods, hash, RCurl, Rgraphviz, XML, ggplot2
Imports igraph, stringi, stringr
LinkingTo
Suggests data.table, dplyr, tidyr, readr, RUnit, BiocGenerics
SystemRequirements Graphviz version >= 2.2
Enhances doParallel
URL
Depends On Me CNORdt, CNORfeeder, CNORfuzzy, CNORode
Imports Me
Suggests Me MEIGOR
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package CellNOptR_1.34.0.tar.gz
Windows Binary CellNOptR_1.34.0.zip (32- & 64-bit)
macOS 10.13 (High Sierra) CellNOptR_1.34.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/CellNOptR
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/CellNOptR
Package Short Url https://bioconductor.org/packages/CellNOptR/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.11 Source Archive

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