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iSEE extension for panels related to differential expression analysis

Bioconductor version: Release (3.19)

This package contains diverse functionality to extend the usage of the iSEE package, including additional classes for the panels or modes facilitating the analysis of differential expression results. This package does not perform differential expression. Instead, it provides methods to embed precomputed differential expression results in a SummarizedExperiment object, in a manner that is compatible with interactive visualisation in iSEE applications.

Author: Kevin Rue-Albrecht [aut, cre] , Thomas Sandmann [ctb] , Denali Therapeutics [fnd]

Maintainer: Kevin Rue-Albrecht <kevinrue67 at>

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


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:

Introduction to iSEEde HTML R Script
Rounding numeric values HTML R Script
Supported differential expression methods HTML R Script
Using annotations to facilitate interactive exploration HTML R Script
Reference Manual PDF


biocViews DifferentialExpression, Infrastructure, Software
Version 1.2.0
In Bioconductor since BioC 3.18 (R-4.3) (0.5 years)
License Artistic-2.0
Depends iSEE
Imports DESeq2, edgeR, methods, S4Vectors, shiny, SummarizedExperiment
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Suggests airway, BiocStyle, covr, knitr, limma,, RefManageR, rmarkdown, scuttle, sessioninfo, statmod, testthat (>= 3.0.0)
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Depends On Me
Imports Me
Suggests Me iSEEpathways
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Follow Installation instructions to use this package in your R session.

Source Package iSEEde_1.2.0.tar.gz
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macOS Binary (x86_64) iSEEde_1.2.0.tgz
macOS Binary (arm64) iSEEde_1.2.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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