recipe bioconductor-spacemarkers

Spatial Interaction Markers

Homepage:

https://bioconductor.org/packages/3.20/bioc/html/SpaceMarkers.html

License:

MIT + file LICENSE

Recipe:

/bioconductor-spacemarkers/meta.yaml

Spatial transcriptomic technologies have helped to resolve the connection between gene expression and the 2D orientation of tissues relative to each other. However, the limited single-cell resolution makes it difficult to highlight the most important molecular interactions in these tissues. SpaceMarkers, R/Bioconductor software, can help to find molecular interactions, by identifying genes associated with latent space interactions in spatial transcriptomics.

package bioconductor-spacemarkers

(downloads) docker_bioconductor-spacemarkers

versions:

1.2.1-0

depends bioconductor-qvalue:

>=2.38.0,<2.39.0

depends r-ape:

depends r-base:

>=4.4,<4.5.0a0

depends r-hdf5r:

depends r-jsonlite:

depends r-matrix:

depends r-matrixstats:

depends r-matrixtests:

depends r-rstatix:

depends r-spatstat.explore:

depends r-spatstat.geom:

requirements:

additional platforms:

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-spacemarkers

and update with::

   mamba update bioconductor-spacemarkers

To create a new environment, run:

mamba create --name myenvname bioconductor-spacemarkers

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-spacemarkers:<tag>

(see `bioconductor-spacemarkers/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-spacemarkers/README.html)