recipe optimir

Integrating genetic variations in miRNA alignment

Homepage:

https://github.com/FlorianThibord/OptimiR

License:

GPL-3

Recipe:

/optimir/meta.yaml

Links:

doi: 10.1261/rna.069708.118

package optimir

(downloads) docker_optimir

versions:

1.2-0,  1.1-0,  1.0-1,  1.0-0

depends biopython:

depends bowtie2:

depends cutadapt:

depends pysam:

depends python:

depends samtools:

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 optimir

and update with::

   mamba update optimir

To create a new environment, run:

mamba create --name myenvname optimir

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/optimir:<tag>

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

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Link to this page

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