lpNet

DOI: 10.18129/B9.bioc.lpNet    

This is the development version of lpNet; for the stable release version, see lpNet.

Linear Programming Model for Network Inference

Bioconductor version: Development (3.12)

lpNet aims at infering biological networks, in particular signaling and gene networks. For that it takes perturbation data, either steady-state or time-series, as input and generates an LP model which allows the inference of signaling networks. For parameter identification either leave-one-out cross-validation or stratified n-fold cross-validation can be used.

Author: Bettina Knapp, Marta R. A. Matos, Johanna Mazur, Lars Kaderali

Maintainer: Lars Kaderali <lars.kaderali at tu-dresden.de>

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

Installation

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

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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("lpNet")

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

Documentation

PDF   Reference Manual

Details

biocViews NetworkInference, Software
Version 2.21.0
In Bioconductor since BioC 2.12 (R-3.0) (7.5 years)
License Artistic License 2.0
Depends lpSolve, nem
Imports
LinkingTo
Suggests
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package
Windows Binary
macOS 10.13 (High Sierra)
Source Repository git clone https://git.bioconductor.org/packages/lpNet
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/lpNet
Package Short Url https://bioconductor.org/packages/lpNet/
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