recipe mirdeep2

A completely overhauled tool which discovers microRNA genes by analyzing sequenced RNAs

Homepage:

https://www.mdc-berlin.de/8551903/en/research/research_teams/systems_biology_of_gene_regulatory_elements/projects/miRDeep

License:

academic

Recipe:

/mirdeep2/meta.yaml

package mirdeep2

versions:

2.0.1.3-1,  2.0.1.3-0,  2.0.1.2-0,  2.0.0.8-5,  2.0.0.8-4,  2.0.0.8-3,  2.0.0.8-2,  2.0.0.8-1,  2.0.0.8-0, 

2.0.1.3-1,  2.0.1.3-0,  2.0.1.2-0,  2.0.0.8-5,  2.0.0.8-4,  2.0.0.8-3,  2.0.0.8-2,  2.0.0.8-1,  2.0.0.8-0,  2.0.0.7-8,  2.0.0.7-7,  2.0.0.7-6,  2.0.0.7-5,  2.0.0.7-4,  2.0.0.7-3,  2.0.0.7-2,  2.0.0.7-1

depends bowtie:

depends perl:

depends perl-compress-raw-zlib:

depends perl-font-ttf:

depends perl-lwp-simple:

depends perl-pdf-api2:

depends randfold:

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 mirdeep2

and update with::

   mamba update mirdeep2

To create a new environment, run:

mamba create --name myenvname mirdeep2

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/mirdeep2:<tag>

(see `mirdeep2/tags`_ for valid values for ``<tag>``)

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