DOI: 10.18129/B9.bioc.GeneTonic    

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

Enjoy Analyzing And Integrating The Results From Differential Expression Analysis And Functional Enrichment Analysis

Bioconductor version: 3.13

This package provides a Shiny application that aims to combine at different levels the existing pieces of the transcriptome data and results, in a way that makes it easier to generate insightful observations and hypothesis - combining the benefits of interactivity and reproducibility, e.g. by capturing the features and gene sets of interest highlighted during the live session, and creating an HTML report as an artifact where text, code, and output coexist.

Author: Federico Marini [aut, cre] , Annekathrin Ludt [aut]

Maintainer: Federico Marini <marinif at>

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


To install this package, start R (version "4.1") and enter:

if (!requireNamespace("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:



HTML R Script The GeneTonic User's Guide
PDF   Reference Manual
Text   NEWS


biocViews Annotation, DifferentialExpression, GO, GUI, GeneExpression, GeneSetEnrichment, Pathways, ReportWriting, Software, Transcription, Transcriptomics, Visualization
Version 1.4.1
In Bioconductor since BioC 3.11 (R-4.0) (1.5 years)
License MIT + file LICENSE
Depends R (>= 4.0.0)
Imports AnnotationDbi, backbone, bs4Dash (>= 2.0.0), circlize, colorspace, colourpicker, ComplexHeatmap, dendextend, DESeq2, dplyr, DT, dynamicTreeCut, expm, ggforce, ggplot2, ggrepel, GO.db, graphics, grDevices, grid, igraph, matrixStats, methods, plotly, RColorBrewer, rintrojs, rlang, rmarkdown, S4Vectors, scales, shiny, shinycssloaders, shinyWidgets, stats, SummarizedExperiment, tidyr, tools, utils, viridis, visNetwork
Suggests knitr, BiocStyle, htmltools, clusterProfiler, macrophage,, magrittr, testthat (>= 2.1.0)
Depends On Me
Imports Me
Suggests Me
Links To Me
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Source Package GeneTonic_1.4.1.tar.gz
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macOS 10.13 (High Sierra) GeneTonic_1.4.1.tgz
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