recipe r-aroma.affymetrix

A cross-platform R framework that facilitates processing of any number of Affymetrix microarray samples regardless of computer system. The only parameter that limits the number of chips that can be processed is the amount of available disk space. The Aroma Framework has successfully been used in studies to process tens of thousands of arrays. This package has actively been used since 2006.

Homepage:

http://www.aroma-project.org/, https://github.com/HenrikBengtsson/aroma.affymetrix

License:

LGPL / LGPL-2.1-or-later

Recipe:

/r-aroma.affymetrix/meta.yaml

package r-aroma.affymetrix

versions:

3.2.2-0,  3.2.1-3,  3.2.1-2,  3.2.1-0,  3.2.0-4,  3.2.0-3,  3.2.0-2,  3.2.0-1,  3.2.0-0, 

3.2.2-0,  3.2.1-3,  3.2.1-2,  3.2.1-0,  3.2.0-4,  3.2.0-3,  3.2.0-2,  3.2.0-1,  3.2.0-0,  3.1.1-2,  3.1.1-1,  3.1.1-0,  3.1.0-0,  3.0.0-0

depends r-aroma.apd:

>=0.6.0

depends r-aroma.core:

>=3.2.0

depends r-base:

>=4.3,<4.4.0a0

depends r-future:

depends r-listenv:

depends r-mass:

depends r-matrixstats:

>=0.55.0

depends r-r.cache:

>=0.14.0

depends r-r.devices:

>=2.16.1

depends r-r.filesets:

>=2.13.0

depends r-r.methodss3:

>=1.7.1

depends r-r.oo:

>=1.23.0

depends r-r.utils:

>=2.9.0

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 r-aroma.affymetrix

and update with::

   mamba update r-aroma.affymetrix

To create a new environment, run:

mamba create --name myenvname r-aroma.affymetrix

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/r-aroma.affymetrix:<tag>

(see `r-aroma.affymetrix/tags`_ for valid values for ``<tag>``)

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