DOI: 10.18129/B9.bioc.cytoviewer  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see cytoviewer.

An interactive multi-channel image viewer for R

Bioconductor version: 3.17

This R package supports interactive visualization of multi-channel images and segmentation masks generated by imaging mass cytometry and other highly multiplexed imaging techniques using shiny. The cytoviewer interface is divided into image-level (Composite and Channels) and cell-level visualization (Masks). It allows users to overlay individual images with segmentation masks, integrates well with SingleCellExperiment and SpatialExperiment objects for metadata visualization and supports image downloads.

Author: Lasse Meyer [aut, cre] , Nils Eling [aut]

Maintainer: Lasse Meyer <lasse.meyer at>

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


To install this package, start R (version "4.3") 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:



HTML R Script Interactive multi-channel image visualization in R
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biocViews DataImport, ImmunoOncology, MultiChannel, OneChannel, SingleCell, Software, Spatial, TwoChannel
Version 1.0.1
In Bioconductor since BioC 3.17 (R-4.3) (< 6 months)
License GPL-3
Imports shiny, shinydashboard, utils, colourpicker, shinycssloaders, svgPanZoom, viridis, archive, grDevices, RColorBrewer, svglite, EBImage, methods, cytomapper, SingleCellExperiment, S4Vectors, SummarizedExperiment
Suggests BiocStyle, knitr, rmarkdown, markdown, testthat
Depends On Me
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Source Package cytoviewer_1.0.1.tar.gz
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