recipe bioconductor-spatialexperiment

S4 Class for Spatial Experiments handling

Homepage

https://bioconductor.org/packages/3.14/bioc/html/SpatialExperiment.html

License

GPL-3

Recipe

/bioconductor-spatialexperiment/meta.yaml

Defines S4 classes for storing data for spatial experiments. Main examples are reported by using seqFISH and 10x-Visium Spatial Gene Expression data. This includes specialized methods for storing, retrieving spatial coordinates, 10x dedicated parameters and their handling.

package bioconductor-spatialexperiment

Versions

1.4.0-0,  1.2.0-0,  1.0.0-1,  1.0.0-0

Depends

• bioconductor-biocfilecache >=2.2.0,<2.3.0

• bioconductor-biocgenerics >=0.40.0,<0.41.0

• bioconductor-dropletutils >=1.14.0,<1.15.0

• bioconductor-s4vectors >=0.32.0,<0.33.0

• bioconductor-singlecellexperiment >=1.16.0,<1.17.0

• bioconductor-summarizedexperiment >=1.24.0,<1.25.0

• r-base >=4.1,<4.2.0a0

• r-magick

• r-rjson

Required By

• bioconductor-tenxvisiumdata

• bioconductor-spatiallibd

• bioconductor-mousegastrulationdata

• bioconductor-ggspavis

• bioconductor-spatialde

• bioconductor-singlecellmultimodal

• bioconductor-stexampledata

• bioconductor-imcrtools

• bioconductor-experimentsubset

Installation

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

conda install bioconductor-spatialexperiment

and update with:

conda update bioconductor-spatialexperiment

or use the docker container:

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

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

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