recipe shannon

A program for assembling transcripts from RNA-Seq data.

Homepage:

http://sreeramkannan.github.io/Shannon/

Developer docs:

https://github.com/sreeramkannan/Shannon

License:

GPL3 / GPLv3

Recipe:

/shannon/meta.yaml

package shannon

(downloads) docker_shannon

versions:

0.0.2-1,  0.0.2-0

depends cvxopt:

depends kmer-jellyfish:

depends metis:

depends numpy:

depends parallel:

depends python:

<3

depends quorum:

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 shannon

and update with::

   mamba update shannon

To create a new environment, run:

mamba create --name myenvname shannon

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/shannon:<tag>

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

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Link to this page

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