recipe bioconductor-a4base

Automated Affymetrix Array Analysis Base Package

Homepage:

https://bioconductor.org/packages/3.18/bioc/html/a4Base.html

License:

GPL-3

Recipe:

/bioconductor-a4base/meta.yaml

Links:

biotools: a4base, doi: 10.1038/nmeth.3252

Base utility functions are available for the Automated Affymetrix Array Analysis set of packages.

package bioconductor-a4base

versions:

1.50.0-0,  1.48.0-0,  1.46.0-0,  1.42.0-0,  1.40.0-0,  1.38.0-1,  1.38.0-0,  1.36.0-0,  1.34.0-0, 

1.50.0-0,  1.48.0-0,  1.46.0-0,  1.42.0-0,  1.40.0-0,  1.38.0-1,  1.38.0-0,  1.36.0-0,  1.34.0-0,  1.32.0-1,  1.30.0-0,  1.28.0-0,  1.26.0-0

depends bioconductor-a4core:

>=1.50.0,<1.51.0

depends bioconductor-a4preproc:

>=1.50.0,<1.51.0

depends bioconductor-annaffy:

>=1.74.0,<1.75.0

depends bioconductor-biobase:

>=2.62.0,<2.63.0

depends bioconductor-genefilter:

>=1.84.0,<1.85.0

depends bioconductor-limma:

>=3.58.0,<3.59.0

depends bioconductor-multtest:

>=2.58.0,<2.59.0

depends r-base:

>=4.3,<4.4.0a0

depends r-glmnet:

depends r-gplots:

depends r-mpm:

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-a4base

and update with::

   mamba update bioconductor-a4base

To create a new environment, run:

mamba create --name myenvname bioconductor-a4base

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-a4base:<tag>

(see `bioconductor-a4base/tags`_ for valid values for ``<tag>``)

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