recipe bioconductor-biodbhmdb

biodbHmdb, a library for connecting to the HMDB Database

Homepage:

https://bioconductor.org/packages/3.18/bioc/html/biodbHmdb.html

License:

AGPL-3

Recipe:

/bioconductor-biodbhmdb/meta.yaml

The biodbHmdb library is an extension of the biodb framework package that provides access to the HMDB Metabolites database. It allows to download the whole HMDB Metabolites database locally, access entries and search for entries by name or description. A future version of this package will also include a search by mass and mass spectra annotation.

package bioconductor-biodbhmdb

versions:

1.8.0-0,  1.6.0-0,  1.4.0-1,  1.4.0-0,  1.0.3-1,  1.0.3-0,  1.0.0-0

depends bioconductor-biodb:

>=1.10.0,<1.11.0

depends bioconductor-biodb:

>=1.10.0,<1.11.0a0

depends libblas:

>=3.9.0,<4.0a0

depends libgcc-ng:

>=12

depends liblapack:

>=3.9.0,<4.0a0

depends libstdcxx-ng:

>=12

depends r-base:

>=4.3,<4.4.0a0

depends r-r6:

depends r-rcpp:

depends r-testthat:

depends r-zip:

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-biodbhmdb

and update with::

   mamba update bioconductor-biodbhmdb

To create a new environment, run:

mamba create --name myenvname bioconductor-biodbhmdb

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-biodbhmdb:<tag>

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