DOI: 10.18129/B9.bioc.CellNOptR    

This is the development version of CellNOptR; to use it, please install the devel version of Bioconductor.

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

Bioconductor version: Development (3.10)

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

Maintainer: A.Gabor <gabor.attila87 at gmail.com>

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


To install this package, start R (version "3.6") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


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PDF CellNOptR0_1flowchart.pdf
PDF Fig2.pdf
PDF Fig3.pdf
PDF Fig4.pdf
PDF Fig6.pdf
PDF Fig7.pdf
PDF Fig8.pdf
PDF R Script Main vignette:Playing with networks using CellNOptR
PDF   Reference Manual
Text   NEWS


biocViews Bioinformatics, CellBasedAssays, CellBiology, ImmunoOncology, Proteomics, Software, TimeCourse
Version 1.31.0
In Bioconductor since BioC 2.9 (R-2.14) (7.5 years)
License GPL-3
Depends R (>= 2.15.0), RBGL, graph, methods, hash, RCurl, Rgraphviz, XML, ggplot2
Imports igraph, stringi, stringr
Suggests data.table, plyr, dplyr, tidyr, readr, RUnit, BiocGenerics
SystemRequirements Graphviz version >= 2.2
Depends On Me CNORdt, CNORfeeder, CNORfuzzy, CNORode
Imports Me
Suggests Me MEIGOR
Links To Me
Build Report  

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Source Package CellNOptR_1.31.0.tar.gz
Windows Binary CellNOptR_1.31.0.zip
Mac OS X 10.11 (El Capitan) CellNOptR_1.31.0.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 http://bioconductor.org/packages/CellNOptR/
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