recipe bioconductor-gcatest

Genotype Conditional Association TEST



GPL (>= 3)




biotools: gcatest, doi: 10.1101/012682

GCAT is an association test for genome wide association studies that controls for population structure under a general class of trait models. This test conditions on the trait, which makes it immune to confounding by unmodeled environmental factors. Population structure is modeled via logistic factors, which are estimated using the `lfa` package.

package bioconductor-gcatest

(downloads) docker_bioconductor-gcatest



depends bioconductor-lfa:


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-gcatest

and update with::

   mamba update bioconductor-gcatest

To create a new environment, run:

mamba create --name myenvname bioconductor-gcatest

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

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