qpgraph

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

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0, 2.14, 2.13, 2.12, 2.11, 2.10, 2.9, 2.8, 2.7, 2.6, 2.5

Estimation of Genetic and Molecular Regulatory Networks from High-Throughput Genomics Data

Bioconductor version: Development (3.24)

Estimate gene and eQTL networks from high-throughput expression and genotyping assays.

Author: Robert Castelo [aut, cre], Alberto Roverato [aut]

Maintainer: Robert Castelo <robert.castelo at upf.edu>

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

Robert Castelo, Alberto Roverato. qpgraph: Estimation of Genetic and Molecular Regulatory Networks from High-Throughput Genomics Data. doi:10.18129/B9.bioc.qpgraph, R package version 2.47.1, https://bioconductor.org/packages/qpgraph.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

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

## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")

BiocManager::install("qpgraph")

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("qpgraph")

BasicUsersGuide.pdf	PDF
Estimate eQTL networks using qpgraph	PDF	R Script
Simulating molecular regulatory networks using qpgraph	PDF	R Script
Reverse-engineer transcriptional regulatory networks using qpgraph	PDF	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	GeneExpression, GeneRegulation, GeneticVariability, Genetics, GraphAndNetwork, Microarray, NetworkInference, Pathways, SNP, Software, Transcription
Version	2.47.1
In Bioconductor since	BioC 2.4 (R-2.9) (17.5 years)
License	GPL (>= 2)
Depends	R (>= 3.5)
Imports	methods, parallel, Matrix (>= 1.5-0), grid, annotate, graph (>= 1.45.1), Biobase, S4Vectors, BiocParallel, AnnotationDbi, IRanges, Seqinfo, GenomicRanges, GenomicFeatures, mvtnorm, qtl, Rgraphviz
System Requirements
URL	https://github.com/rcastelo/qpgraph
Bug Reports	https://github.com/rcastelo/qpgraph/issues

Suggests	RUnit, BiocGenerics, BiocStyle, genefilter, org.EcK12.eg.db, rlecuyer, snow, Category, GOstats
Linking To
Enhances
Depends On Me
Imports Me	clipper, MOSClip, topologyGSA
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	qpgraph_2.47.1.tar.gz
Windows Binary (x86_64)	qpgraph_2.47.1.zip
macOS Binary (big-sur-x86_64)	qpgraph_2.47.1.tgz
macOS Binary (sonoma-arm64)	qpgraph_2.47.1.tgz
Source Repository	git clone https://git.bioconductor.org/packages/qpgraph
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/qpgraph
Package Short Url	https://bioconductor.org/packages/qpgraph/
Package Downloads Report	Download Stats