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MOSt frequently used and useful Differential Expression Functions

Bioconductor version: Release (3.19)

This package provides functionality to run a number of tasks in the differential expression analysis workflow. This encompasses the most widely used steps, from running various enrichment analysis tools with a unified interface to creating plots and beautifying table components linking to external websites and databases. This streamlines the generation of comprehensive analysis reports.

Author: Leon Dammer [aut] , Federico Marini [aut, cre]

Maintainer: Federico Marini <marinif at>

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


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:

The mosdef User's Guide HTML R Script
Reference Manual PDF


biocViews DifferentialExpression, GO, GeneExpression, GeneSetEnrichment, ReportWriting, Software, Transcription, Transcriptomics, Visualization
Version 1.0.0
In Bioconductor since BioC 3.19 (R-4.4) (< 6 months)
License MIT + file LICENSE
Depends R (>= 4.4.0)
Imports DT, ggplot2, ggforce, ggrepel, htmltools, methods, AnnotationDbi, topGO, GO.db, clusterProfiler, goseq, utils, RColorBrewer, rlang, DESeq2, scales, SummarizedExperiment, S4Vectors, stats
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Suggests knitr, rmarkdown, macrophage,, GeneTonic, testthat (>= 3.0.0), TxDb.Hsapiens.UCSC.hg38.knownGene, BiocStyle
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Follow Installation instructions to use this package in your R session.

Source Package mosdef_1.0.0.tar.gz
Windows Binary
macOS Binary (x86_64) mosdef_1.0.0.tgz
macOS Binary (arm64) mosdef_1.0.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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