netbenchmark

This package is for version 3.8 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see netbenchmark.

Benchmarking of several gene network inference methods

DOI: 10.18129/B9.bioc.netbenchmark

Bioconductor version: 3.8

This package implements a benchmarking of several gene network inference algorithms from gene expression data.

Author: Pau Bellot, Catharina Olsen, Patrick Meyer

Maintainer: Pau Bellot <pau.bellot at upc.edu>

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

Installation

To install this package, start R (version "3.5") and enter:


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

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("netbenchmark")

Netbenchmark HTML R Script

Reference Manual PDF

NEWS Text

LICENSE Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews GeneExpression, GraphAndNetwork, Microarray, Network, NetworkInference, Software

Version 1.14.0

In Bioconductor since BioC 3.1 (R-3.2) (9 years)

License CC BY-NC-SA 4.0

Depends grndata(>= 0.99.3)

Imports Rcpp (>= 0.11.0), minet, GENIE3, c3net, PCIT, GeneNet, tools, pracma, Matrix, corpcor, fdrtool

System Requirements

URL https://imatge.upc.edu/netbenchmark/

Suggests RUnit, BiocGenerics, knitr, graph

Linking To Rcpp

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 netbenchmark_1.14.0.tar.gz

Windows Binary netbenchmark_1.14.0.zip (32- & 64-bit)

Mac OS X 10.11 (El Capitan) netbenchmark_1.14.0.tgz

Source Repository git clone https://git.bioconductor.org/packages/netbenchmark

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/netbenchmark

Bioc Package Browser https://code.bioconductor.org/browse/netbenchmark/

Package Short Url https://bioconductor.org/packages/netbenchmark/

Package Downloads Report Download Stats

Old Source Packages for BioC 3.8 Source Archive