recipe bioconductor-affixcan

A Functional Approach To Impute Genetically Regulated Expression






Impute a GReX (Genetically Regulated Expression) for a set of genes in a sample of individuals, using a method based on the Total Binding Affinity (TBA). Statistical models to impute GReX can be trained with a training dataset where the real total expression values are known.

package bioconductor-affixcan

(downloads) docker_bioconductor-affixcan



depends bioconductor-biocparallel:


depends bioconductor-multiassayexperiment:


depends bioconductor-summarizedexperiment:


depends r-base:


depends r-crayon:



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-affixcan

and update with::

   mamba update bioconductor-affixcan

To create a new environment, run:

mamba create --name myenvname bioconductor-affixcan

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-affixcan/tags`_ for valid values for ``<tag>``)

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