recipe bioconductor-hcadata

Accessing The Datasets Of The Human Cell Atlas in R/Bioconductor

Homepage:

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

License:

MIT + file LICENSE

Recipe:

/bioconductor-hcadata/meta.yaml

This package allows a direct access to the dataset generated by the Human Cell Atlas project for further processing in R and Bioconductor, in the comfortable format of SingleCellExperiment objects (available in other formats here: http://preview.data.humancellatlas.org/).

package bioconductor-hcadata

(downloads) docker_bioconductor-hcadata

versions:
1.18.0-0,  1.16.0-0,  1.14.0-0,  1.10.0-1,  1.10.0-0,  1.8.0-0,  1.6.0-2,  1.6.0-1,  1.4.0-0, 

1.18.0-0,  1.16.0-0,  1.14.0-0,  1.10.0-1,  1.10.0-0,  1.8.0-0,  1.6.0-2,  1.6.0-1,  1.4.0-0,  1.2.0-0,  1.0.0-1

depends bioconductor-annotationhub:

>=3.10.0,<3.11.0

depends bioconductor-data-packages:

>=20231203

depends bioconductor-experimenthub:

>=2.10.0,<2.11.0

depends bioconductor-hdf5array:

>=1.30.0,<1.31.0

depends bioconductor-singlecellexperiment:

>=1.24.0,<1.25.0

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-hcadata

and update with::

   mamba update bioconductor-hcadata

To create a new environment, run:

mamba create --name myenvname bioconductor-hcadata

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-hcadata:<tag>

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

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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-hcadata/README.html)