recipe rnaprot

Modelling RBP binding preferences to predict RPB binding sites






package rnaprot

(downloads) docker_rnaprot



depends bedtools:

depends hpbandster:

depends logomaker:

depends markdown:


depends plotly:

depends python:


depends pytorch:


depends scikit-learn:

depends seaborn:

depends ucsc-bigwigaverageoverbed:

depends ucsc-twobitinfo:

depends ucsc-twobittofa:

depends ushuffle:

depends viennarna:



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 rnaprot

and update with::

   mamba update rnaprot

To create a new environment, run:

mamba create --name myenvname rnaprot

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 `rnaprot/tags`_ for valid values for ``<tag>``)

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