recipe bioconductor-cardinal

A mass spectrometry imaging toolbox for statistical analysis

Homepage:

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

License:

Artistic-2.0

Recipe:

/bioconductor-cardinal/meta.yaml

Links:

biotools: cardinal, usegalaxy-eu: cardinal_segmentations

Implements statistical & computational tools for analyzing mass spectrometry imaging datasets, including methods for efficient pre-processing, spatial segmentation, and classification.

package bioconductor-cardinal

versions:

3.8.0-0,  3.4.3-0,  3.2.1-0,  3.0.1-1,  3.0.1-0,  3.0.0-0,  2.12.0-2,  2.12.0-1,  2.12.0-0, 

3.8.0-0,  3.4.3-0,  3.2.1-0,  3.0.1-1,  3.0.1-0,  3.0.0-0,  2.12.0-2,  2.12.0-1,  2.12.0-0,  2.10.0-0,  2.8.0-2,  2.8.0-1,  2.8.0-0,  2.6.0-0,  2.4.0-0,  2.2.6-0,  2.0.4-0,  2.0.2-0,  1.12.1-1,  1.12.1-0,  1.10.0-0,  1.8.0-0,  1.7.0-0

depends bioconductor-biobase:

>=2.66.0,<2.67.0

depends bioconductor-biocgenerics:

>=0.52.0,<0.53.0

depends bioconductor-biocparallel:

>=1.40.0,<1.41.0

depends bioconductor-cardinalio:

>=1.4.0,<1.5.0

depends bioconductor-ebimage:

>=4.48.0,<4.49.0

depends bioconductor-matter:

>=2.8.0,<2.9.0

depends bioconductor-protgenerics:

>=1.38.0,<1.39.0

depends bioconductor-s4vectors:

>=0.44.0,<0.45.0

depends r-base:

>=4.4,<4.5.0a0

depends r-irlba:

depends r-matrix:

depends r-nlme:

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-cardinal

and update with::

   mamba update bioconductor-cardinal

To create a new environment, run:

mamba create --name myenvname bioconductor-cardinal

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-cardinal:<tag>

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

Download stats

Link to this page

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[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-cardinal/README.html)