recipe bioconductor-cytomapper

Visualization of highly multiplexed imaging cytometry data in R



GPL (>= 2)



Highly multiplexed imaging cytometry acquires the single-cell expression of selected proteins in a spatially-resolved fashion. These measurements can be visualized 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 visualized on segmented cell areas. This package contains functions for the visualization of multiplexed read-outs and cell-level information obtained by multiplexed imaging cytometry. The main functions of this package allow 1. the visualization of pixel-level information across multiple channels and 2. the display of cell-level information (expression and/or metadata) on segmentation masks.

package bioconductor-cytomapper

(downloads) docker_bioconductor-cytomapper



Required By


With an activated Bioconda channel (see 2. 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>)