recipe r-jetset

On Affymetrix gene expression microarrays, a single gene may be measured by multiple probe sets. This can present a mild conundrum when attempting to evaluate a gene "signature" that is defined by gene names rather than by specific probe sets. This package provides a one-to-one mapping from gene to "best" probe set for four Affymetrix human gene expression microarrays: hgu95av2, hgu133a, hgu133plus2, and u133x3p. This package also includes the pre-calculated probe set quality scores that were used to define the mapping.

Homepage:

http://www.cbs.dtu.dk/biotools/jetset/

License:

OTHER / Artistic-2.0

Recipe:

/r-jetset/meta.yaml

package r-jetset

versions:

3.4.0-2,  3.4.0-1,  3.4.0-0

depends bioconductor-annotationdbi:

depends bioconductor-org.hs.eg.db:

depends r-base:

>=4.3,<4.4.0a0

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-jetset

and update with::

   mamba update r-jetset

To create a new environment, run:

mamba create --name myenvname r-jetset

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-jetset:<tag>

(see `r-jetset/tags`_ for valid values for ``<tag>``)

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