recipe bioconductor-stexampledata

Collection of spatially-resolved transcriptomics datasets in SpatialExperiment Bioconductor format

Homepage:

https://bioconductor.org/packages/3.18/data/experiment/html/STexampleData.html

License:

MIT + file LICENSE

Recipe:

/bioconductor-stexampledata/meta.yaml

Collection of spatially-resolved transcriptomics (SRT) datasets in SpatialExperiment Bioconductor format, for use in examples, demonstrations, and tutorials. The datasets are from several different SRT platforms and have been sourced from various publicly available sources. Several datasets include images and/or ground truth annotation labels.

package bioconductor-stexampledata

(downloads) docker_bioconductor-stexampledata

versions:

1.10.0-0,  1.8.0-0,  1.6.0-0,  1.2.0-1,  1.2.0-0,  1.0.0-0

depends bioconductor-data-packages:

>=20231203

depends bioconductor-experimenthub:

>=2.10.0,<2.11.0

depends bioconductor-spatialexperiment:

>=1.12.0,<1.13.0

depends curl:

depends r-base:

>=4.3,<4.4.0a0

requirements:

Installation

You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install bioconductor-stexampledata

and update with::

   mamba update bioconductor-stexampledata

To create a new environment, run:

mamba create --name myenvname bioconductor-stexampledata

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

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

(see `bioconductor-stexampledata/tags`_ for valid values for ``<tag>``)

Download stats

Link to this page

Render an install-with-bioconda 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-stexampledata/README.html)