recipe bioconductor-hubmapr

Interface to 'HuBMAP'

Homepage:

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

License:

Artistic-2.0

Recipe:

/bioconductor-hubmapr/meta.yaml

'HuBMAP' provides an open, global bio-molecular atlas of the human body at the cellular level. The `datasets()`, `samples()`, `donors()`, `publications()`, and `collections()` functions retrieves the information for each of these entity types. `*_details()` are available for individual entries of each entity type. `*_derived()` are available for retrieving derived datasets or samples for individual entries of each entity type. Data files can be accessed using `files_globus_url()`.

package bioconductor-hubmapr

(downloads) docker_bioconductor-hubmapr

versions:

0.99.6-0

depends r-base:

>=4.4,<4.5.0a0

depends r-dplyr:

depends r-httr2:

depends r-purrr:

depends r-rjsoncons:

depends r-rlang:

depends r-stringr:

depends r-tibble:

depends r-tidyr:

depends r-whisker:

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-hubmapr

and update with::

   mamba update bioconductor-hubmapr

To create a new environment, run:

mamba create --name myenvname bioconductor-hubmapr

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-hubmapr:<tag>

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