RegEnrich
This is the development version of RegEnrich; for the stable release version, see RegEnrich.
All Bioconductor versions of RegEnrich
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
Gene regulator enrichment analysis
Bioconductor version: 3.24 · Package version: 1.23.2
This package is a pipeline to identify the key gene regulators in a biological process, for example in cell differentiation and in cell development after stimulation. There are four major steps in this pipeline: (1) differential expression analysis; (2) regulator-target network inference; (3) enrichment analysis; and (4) regulators scoring and ranking.
Author: Weiyang Tao [cre, aut], Aridaman Pandit [aut]
Maintainer: Weiyang Tao <weiyangtao1513 at gmail.com>
Citation
From within R, enter citation("RegEnrich"):
Weiyang Tao, Aridaman Pandit. RegEnrich: Gene regulator enrichment analysis. doi:10.18129/B9.bioc.RegEnrich, R package version 1.23.2, https://bioconductor.org/packages/RegEnrich.
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("RegEnrich")For older versions of R, please refer to the appropriate Bioconductor release.
Details
| Version | 1.23.2 |
| License | GPL (>= 2) |
| Last updated | 2026-10-07 |
| In Bioconductor since | BioC 3.12 (R-4.0) (5 years) |
| Downloads rank | 1339 of 2,456 |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | DifferentialExpression, FunctionalPrediction, GeneExpression, GeneSetEnrichment, GeneTarget, Network, NetworkEnrichment, NetworkInference, RNASeq, Software, Transcription, Transcriptomics, TwoChannel |
| Package Short Url | https://bioconductor.org/packages/RegEnrich/ |
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("RegEnrich")| RegEnrich: an R package for gene regulator enrichment analysis | HTML |
| Reference Manual | |
| NEWS | Text |
Download
Follow the installation instructions to use this package in your R session.
| Source Repository | git clone https://git.bioconductor.org/packages/RegEnrich |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/RegEnrich |
| Package Downloads Report | Download Stats |
Dependencies
Depends: R (>= 4.0.0), S4Vectors, dplyr, tibble, BiocSet, SummarizedExperiment
Imports: randomForest, fgsea, enrichit, qvalue, gson, DOSE, BiocParallel, DESeq2, limma, WGCNA, ggplot2 (>= 2.2.0), methods, reshape2, magrittr, BiocStyle
Suggests: GEOquery (>= 2.81.28), rmarkdown, knitr, BiocManager, testthat