recipe clipcontext

Extract CLIP-seq binding regions with both genomic and transcript context

Homepage:

https://github.com/BackofenLab/CLIPcontext

License:

MIT

Recipe:

/clipcontext/meta.yaml

package clipcontext

versions:

0.7-0,  0.6-0,  0.3-0,  0.2-0,  0.1-0

depends bedtools:

2.29.0.*

depends markdown:

>=3.2.1

depends matplotlib-base:

>=3.1.3

depends pandas:

>=1.0.3

depends python:

>=3.6

depends seaborn:

>=0.10.0

depends ucsc-twobitinfo:

depends ucsc-twobittofa:

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 clipcontext

and update with::

   mamba update clipcontext

To create a new environment, run:

mamba create --name myenvname clipcontext

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/clipcontext:<tag>

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

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Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/clipcontext/README.html)