recipe bioconductor-rgoslin

Lipid Shorthand Name Parsing and Normalization

Homepage:

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

License:

MIT + file LICENSE

Recipe:

/bioconductor-rgoslin/meta.yaml

The R implementation for the Grammar of Succint Lipid Nomenclature parses different short hand notation dialects for lipid names. It normalizes them to a standard name. It further provides calculated monoisotopic masses and sum formulas for each successfully parsed lipid name and supplements it with LIPID MAPS Category and Class information. Also, the structural level and further structural details about the head group, fatty acyls and functional groups are returned, where applicable.

package bioconductor-rgoslin

versions:

1.6.0-1,  1.6.0-0,  1.4.0-0,  1.2.0-2,  1.2.0-1,  1.2.0-0

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-dplyr:

depends r-rcpp:

>=1.0.3

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-rgoslin

and update with::

   mamba update bioconductor-rgoslin

To create a new environment, run:

mamba create --name myenvname bioconductor-rgoslin

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-rgoslin:<tag>

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

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Link to this page

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