recipe bioconductor-spatialde

R wrapper for SpatialDE

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/spatialDE.html

License:

MIT + file LICENSE

Recipe:

/bioconductor-spatialde/meta.yaml

SpatialDE is a method to find spatially variable genes (SVG) from spatial transcriptomics data. This package provides wrappers to use the Python SpatialDE library in R, using reticulate and basilisk.

package bioconductor-spatialde

Versions:

1.4.0-0,  1.0.0-0

Depends:

• bioconductor-basilisk >=1.9.0,<1.10.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• bioconductor-spatialexperiment >=1.8.0,<1.9.0

• bioconductor-summarizedexperiment >=1.28.0,<1.29.0

• r-base >=4.2,<4.3.0a0

• r-checkmate

• r-ggplot2

• r-ggrepel

• r-gridextra

• r-matrix

• r-reticulate

• r-scales

Required By:

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install bioconductor-spatialde

and update with:

conda update bioconductor-spatialde

or use the docker container:

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

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

Download stats

Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-spatialde/README.html)