recipe bioconductor-imcdatasets

Collection of publicly available imaging mass cytometry (IMC) datasets

Homepage:

https://bioconductor.org/packages/3.14/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:

1.2.0-0,  1.0.0-0

Depends:

• bioconductor-cytomapper >=1.6.0,<1.7.0

• bioconductor-delayedarray >=0.20.0,<0.21.0

• bioconductor-experimenthub >=2.2.0,<2.3.0

• bioconductor-hdf5array >=1.22.0,<1.23.0

• bioconductor-s4vectors >=0.32.0,<0.33.0

• bioconductor-singlecellexperiment >=1.16.0,<1.17.0

• curl >=7.79.1,<8.0a0

• r-base >=4.1,<4.2.0a0

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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