DOI: 10.18129/B9.bioc.imcdatasets  

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

Collection of publicly available imaging mass cytometry (IMC) datasets

Bioconductor version: 3.17

The imcdatasets package provides access to publicly available IMC datasets. IMC is a technology that enables measurement of > 40 proteins from tissue sections. The generated images can be segmented to extract single cell data. Datasets typically consist of three elements: a SingleCellExperiment object containing single cell data, a CytoImageList object containing multichannel images and a CytoImageList object containing the cell masks that were used to extract the single cell data from the images.

Author: Nicolas Damond [aut, cre] , Nils Eling [ctb] , Fischer Jana [ctb]

Maintainer: Nicolas Damond <nicolas.damond at>

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


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HTML R Script Accessing IMC datasets
HTML R Script Contributing guidelines and datasets format
PDF   Reference Manual
Text   NEWS


biocViews ExperimentData, ExperimentHub, Homo_sapiens_Data, ImmunoOncologyData, PackageTypeData, ReproducibleResearch, SingleCellData, SpatialData, TechnologyData, Tissue
Version 1.8.0
License GPL-3 + file LICENSE
Depends R (>= 4.3.0), SingleCellExperiment, SpatialExperiment, cytomapper
Imports methods, utils, ExperimentHub, S4Vectors, DelayedArray, HDF5Array
Suggests BiocStyle, knitr, rmarkdown, markdown, testthat
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