recipe bioconductor-rsbml

R support for SBML, using libsbml

Homepage:

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

License:

Artistic-2.0

Recipe:

/bioconductor-rsbml/meta.yaml

Links R to libsbml for SBML parsing, validating output, provides an S4 SBML DOM, converts SBML to R graph objects. Optionally links to the SBML ODE Solver Library (SOSLib) for simulating models.

package bioconductor-rsbml

versions:

2.60.0-0,  2.58.0-0,  2.56.0-1,  2.56.0-0,  2.52.0-2,  2.52.0-1,  2.52.0-0,  2.50.0-0,  2.48.0-1, 

2.60.0-0,  2.58.0-0,  2.56.0-1,  2.56.0-0,  2.52.0-2,  2.52.0-1,  2.52.0-0,  2.50.0-0,  2.48.0-1,  2.48.0-0

depends bioconductor-biocgenerics:

>=0.48.0,<0.49.0

depends bioconductor-biocgenerics:

>=0.48.1,<0.49.0a0

depends bioconductor-graph:

>=1.80.0,<1.81.0

depends bioconductor-graph:

>=1.80.0,<1.81.0a0

depends libblas:

>=3.9.0,<4.0a0

depends libgcc-ng:

>=12

depends liblapack:

>=3.9.0,<4.0a0

depends libsbml:

>=5.10.2

depends libsbml:

>=5.18.0,<5.19.0a0

depends libstdcxx-ng:

>=12

depends r-base:

>=4.3,<4.4.0a0

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-rsbml

and update with::

   mamba update bioconductor-rsbml

To create a new environment, run:

mamba create --name myenvname bioconductor-rsbml

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-rsbml:<tag>

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

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Link to this page

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