recipe bioconductor-imcdatasets

Collection of publicly available imaging mass cytometry (IMC) datasets

Homepage

https://bioconductor.org/packages/3.13/data/experiment/html/imcdatasets.html

License

GPL-3

Recipe

/bioconductor-imcdatasets/meta.yaml

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.

package bioconductor-imcdatasets

Versions

1.0.0-0

Depends

• bioconductor-cytomapper >=1.4.0,<1.5.0

• bioconductor-delayedarray >=0.18.0,<0.19.0

• bioconductor-experimenthub >=2.0.0,<2.1.0

• bioconductor-hdf5array >=1.20.0,<1.21.0

• bioconductor-s4vectors >=0.30.0,<0.31.0

• bioconductor-singlecellexperiment >=1.14.0,<1.15.0

• curl >=7.77.0,<8.0a0

• r-base >=4.1,<4.2.0a0

Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-imcdatasets

and update with:

conda update bioconductor-imcdatasets

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-imcdatasets:<tag>

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

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