recipe garnet

GarNet uses gene expression and epigenetic data to impute transcription factors (TFs) that played an important role in a biological system.

Homepage:

https://github.com/fraenkel-lab/GarNet

License:

MIT / MIT

Recipe:

/garnet/meta.yaml

package garnet

versions:

0.4.5-0,  0.4.3-0,  0.4.0-0,  0.2.20-0,  0.2.17-0

depends intervaltree:

depends jinja2:

depends libgcc:

depends matplotlib:

depends numpy:

depends pandas:

depends python:

3.5*

depends statsmodels:

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 garnet

and update with::

   mamba update garnet

To create a new environment, run:

mamba create --name myenvname garnet

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/garnet:<tag>

(see `garnet/tags`_ for valid values for ``<tag>``)

Download stats

Link to this page

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