recipe bioconductor-cytomapper

Visualization of highly multiplexed imaging data in R



GPL (>= 2)



Highly multiplexed imaging acquires the single-cell expression of selected proteins in a spatially-resolved fashion. These measurements can be visualised across multiple length-scales. First, pixel-level intensities represent the spatial distributions of feature expression with highest resolution. Second, after segmentation, expression values or cell-level metadata (e.g. cell-type information) can be visualised on segmented cell areas. This package contains functions for the visualisation of multiplexed read-outs and cell-level information obtained by multiplexed imaging technologies. The main functions of this package allow 1. the visualisation of pixel-level information across multiple channels, 2. the display of cell-level information (expression and/or metadata) on segmentation masks and 3. gating and visualisation of single cells.

package bioconductor-cytomapper

(downloads) docker_bioconductor-cytomapper



Required By:


With an activated Bioconda channel (see set-up-channels), install with:

conda install bioconductor-cytomapper

and update with:

conda update bioconductor-cytomapper

or use the docker container:

docker pull<tag>

(see bioconductor-cytomapper/tags for valid values for <tag>)

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