recipe virchip

Virtual ChIP-seq predicts transcription factor binding in any cell type with chromatin accessibility and transcriptome data. Manuscript DOI: https://doi.org/10.1101/168419

Homepage:

https://virchip.hoffmanlab.org

License:

General Public License version 3

Recipe:

/virchip/meta.yaml

package virchip

versions:

1.2.2-0

depends numpy:

>=1.4.15

depends pandas:

0.23.*

depends python:

<3

depends r-base:

depends scikit-learn:

>=0.18.1

depends scipy:

1.1.0.*

requirements:

additional platforms:

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 virchip

and update with::

   mamba update virchip

To create a new environment, run:

mamba create --name myenvname virchip

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/virchip:<tag>

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

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