CoRegFlux

This package is for version 3.9 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see CoRegFlux.

CoRegFlux


Bioconductor version: 3.9

CoRegFlux aims at providing tools to integrate reverse engineered gene regulatory networks and gene-expression into metabolic models to improve prediction of phenotypes, both for metabolic engineering, through transcription factor or gene (TF) knock-out or overexpression in various conditions as well as to improve our understanding of the interactions and cell inner-working.

Author: Pauline Trébulle, Daniel Trejo-Banos, Mohamed Elati

Maintainer: Pauline Trébulle and Mohamed Elati <coregflux at gmail.com>

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

Installation

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


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

BiocManager::install("CoRegFlux")

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("CoRegFlux")
CoRegFlux HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews GeneExpression, GenePrediction, GeneRegulation, Network, Software, SystemsBiology, Transcription
Version 1.0.0
In Bioconductor since BioC 3.9 (R-3.6) (5 years)
License GPL-3
Depends R (>= 3.6)
Imports CoRegNet, sybil
System Requirements GLPK (>= 4.42)
URL
See More
Suggests glpkAPI, testthat, knitr, rmarkdown, digest, R.cache, ggplot2, plyr, igraph, methods, latex2exp, rBayesianOptimization
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report Build Report

Package Archives

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

Source Package CoRegFlux_1.0.0.tar.gz
Windows Binary CoRegFlux_1.0.0.zip
Mac OS X 10.11 (El Capitan) CoRegFlux_1.0.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/CoRegFlux
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/CoRegFlux
Bioc Package Browser https://code.bioconductor.org/browse/CoRegFlux/
Package Short Url https://bioconductor.org/packages/CoRegFlux/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.9 Source Archive