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 (3.7)

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")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("http://bioc.ism.ac.jp/biocLite.R")
biocLite("CellNOptR")

Documentation

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

browseVignettes("CellNOptR")

 

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

Details

biocViews Bioinformatics, CellBasedAssays, CellBiology, Proteomics, Software, TimeCourse
Version 1.26.0
In Bioconductor since BioC 2.9 (R-2.14) (6.5 years)
License GPL-3
Depends R (>= 2.15.0), RBGL, graph, methods, hash, RCurl, Rgraphviz, XML, ggplot2
Imports
LinkingTo
Suggests RUnit, BiocGenerics, igraph, stringi, stringr
SystemRequirements Graphviz version >= 2.2
Enhances
URL
Depends On Me CNORdt, CNORfeeder, CNORfuzzy, CNORode
Imports Me
Suggests Me MEIGOR
Build Report  

Package Archives

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

Source Package CellNOptR_1.26.0.tar.gz
Windows Binary CellNOptR_1.26.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) CellNOptR_1.26.0.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/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: