recipe seqcluster

small RNA analysis from NGS data

Homepage:

https://github.com/lpantano/seqclsuter

License:

MIT

Recipe:

/seqcluster/meta.yaml

Links:

biotools: seqcluster

package seqcluster

(downloads) docker_seqcluster

versions:
1.2.9-0,  1.2.8-0,  1.2.7-1,  1.2.7-0,  1.2.5-0,  1.2.4-0,  1.2.4a15-1,  1.2.4a15-0,  1.2.4a14-2, 

1.2.9-0,  1.2.8-0,  1.2.7-1,  1.2.7-0,  1.2.5-0,  1.2.4-0,  1.2.4a15-1,  1.2.4a15-0,  1.2.4a14-2,  1.2.4a14-1,  1.2.4a14-0,  1.2.4a12-1,  1.2.4a12-0,  1.2.4a6-0,  1.2.4a5-0,  1.2.4a-6,  1.2.4a-5,  1.2.4a-4,  1.2.4a-2,  1.2.4a-1,  1.2.4a-0,  1.2.3-0,  1.2.2-0,  1.2.1-0,  1.2.0-0,  1.1.14-0,  1.1.13-3,  1.1.13-2,  1.1.13-1,  1.1.13-0

depends biopython:

depends mirtop:

depends pandas:

depends progressbar2:

depends pybedtools:

depends pysam:

depends python:

depends pyyaml:

depends scipy:

depends six:

depends viennarna:

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 seqcluster

and update with::

   mamba update seqcluster

To create a new environment, run:

mamba create --name myenvname seqcluster

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/seqcluster:<tag>

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

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