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Extraction of Differential Gene Expression

Bioconductor version: Release (3.19)

The edge package implements methods for carrying out differential expression analyses of genome-wide gene expression studies. Significance testing using the optimal discovery procedure and generalized likelihood ratio tests (equivalent to F-tests and t-tests) are implemented for general study designs. Special functions are available to facilitate the analysis of common study designs, including time course experiments. Other packages such as sva and qvalue are integrated in edge to provide a wide range of tools for gene expression analysis.

Author: John D. Storey, Jeffrey T. Leek and Andrew J. Bass

Maintainer: John D. Storey <jstorey at>, Andrew J. Bass <ajbass at>

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


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

edge Package PDF R Script
Reference Manual PDF


biocViews DataImport, DifferentialExpression, GeneExpression, MultipleComparison, Regression, Software, TimeCourse
Version 2.36.0
In Bioconductor since BioC 3.1 (R-3.2) (9 years)
License MIT + file LICENSE
Depends R (>= 3.1.0), Biobase
Imports methods, splines, sva, qvalue(>= 1.99.0), MASS
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Suggests testthat, knitr, ggplot2, reshape2
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Follow Installation instructions to use this package in your R session.

Source Package edge_2.36.0.tar.gz
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macOS Binary (x86_64) edge_2.36.0.tgz
macOS Binary (arm64) edge_2.36.0.tgz
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