qpgraph
Estimation of genetic and molecular regulatory networks from high-throughput genomics data
Bioconductor version: Release (3.20)
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")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
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 | ||
| Estimate eQTL networks using qpgraph | R Script | |
| Reverse-engineer transcriptional regulatory networks using qpgraph | R Script | |
| Simulating molecular regulatory networks using qpgraph | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | GeneExpression, GeneRegulation, GeneticVariability, Genetics, GraphAndNetwork, Microarray, NetworkInference, Pathways, SNP, Software, Transcription |
| Version | 2.40.0 |
| In Bioconductor since | BioC 2.4 (R-2.9) (15.5 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, GenomeInfoDb, GenomicRanges, GenomicFeatures, mvtnorm, qtl, Rgraphviz |
| System Requirements | |
| URL | https://github.com/rcastelo/qpgraph |
| Bug Reports | https://github.com/rcastelo/rcastelo/issues |
See More
| 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 |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | qpgraph_2.40.0.tar.gz |
| Windows Binary (x86_64) | qpgraph_2.40.0.zip |
| macOS Binary (x86_64) | qpgraph_2.40.0.tgz |
| macOS Binary (arm64) | qpgraph_2.40.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/qpgraph |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/qpgraph |
| Bioc Package Browser | https://code.bioconductor.org/browse/qpgraph/ |
| Package Short Url | https://bioconductor.org/packages/qpgraph/ |
| Package Downloads Report | Download Stats |