recipe bioconductor-keggdzpathwaysgeo

KEGG Disease Datasets from GEO






This is a collection of 24 data sets for which the phenotype is a disease with a corresponding pathway in the KEGG database.This collection of datasets were used as gold standard in comparing gene set analysis methods by the PADOG package.

package bioconductor-keggdzpathwaysgeo

(downloads) docker_bioconductor-keggdzpathwaysgeo



depends bioconductor-biobase:


depends bioconductor-biocgenerics:


depends bioconductor-data-packages:


depends curl:

depends r-base:




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-keggdzpathwaysgeo

and update with::

   mamba update bioconductor-keggdzpathwaysgeo

To create a new environment, run:

mamba create --name myenvname bioconductor-keggdzpathwaysgeo

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<tag>

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

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