DOI: 10.18129/B9.bioc.RegEnrich    

This package is for version 3.13 of Bioconductor; for the stable, up-to-date release version, see RegEnrich.

Gene regulator enrichment analysis

Bioconductor version: 3.13

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 <w.tao-2 at>

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


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biocViews DifferentialExpression, FunctionalPrediction, GeneExpression, GeneSetEnrichment, GeneTarget, Network, NetworkEnrichment, NetworkInference, RNASeq, Software, Transcription, Transcriptomics, TwoChannel
Version 1.2.0
In Bioconductor since BioC 3.12 (R-4.0) (1 year)
License GPL (>= 2)
Depends R (>= 4.0.0), S4Vectors, dplyr, tibble, BiocSet, SummarizedExperiment
Imports randomForest, fgsea, DOSE, BiocParallel, DESeq2, limma, WGCNA, ggplot2 (>= 2.2.0), methods, reshape2, magrittr
Suggests GEOquery, rmarkdown, knitr, BiocManager, testthat
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