recipe bioconductor-imcdatasets

Collection of publicly available imaging mass cytometry (IMC) datasets

Homepage:

https://bioconductor.org/packages/3.16/data/experiment/html/imcdatasets.html

License:

GPL-3 + file LICENSE

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:

1.6.0-0,  1.2.0-1,  1.2.0-0,  1.0.0-0

Depends:

• bioconductor-cytomapper >=1.10.0,<1.11.0

• bioconductor-data-packages >=20221108

• bioconductor-delayedarray >=0.24.0,<0.25.0

• bioconductor-experimenthub >=2.6.0,<2.7.0

• bioconductor-hdf5array >=1.26.0,<1.27.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• bioconductor-singlecellexperiment >=1.20.0,<1.21.0

• bioconductor-spatialexperiment >=1.8.0,<1.9.0

• curl

• r-base >=4.2,<4.3.0a0

Required By:

Installation

With an activated Bioconda channel (see 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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