recipe mockinbird

A fully automatic and reproducible PAR-CLIP analysis pipeline

Homepage:

https://github.com/soedinglab/mockinbird

Documentation:

http://wwwuser.gwdg.de/~compbiol/mockinbird/doc/

License:

GPL3 / GPL-3.0-or-later

Recipe:

/mockinbird/meta.yaml

package mockinbird

versions:

1.0.0a1-7,  1.0.0a1-6,  1.0.0a1-5,  1.0.0a1-4,  1.0.0a1-3,  1.0.0a1-2,  1.0.0a1-1,  1.0.0a1-0

depends bowtie:

depends fastqc:

depends jinja2:

depends libgcc-ng:

>=12

depends matplotlib-base:

depends numpy:

depends pandas:

depends pysam:

depends python:

>=3.10,<3.11.0a0

depends python_abi:

3.10.* *_cp310

depends pyyaml:

depends r-base:

depends r-lsd:

depends samtools:

depends scipy:

depends seaborn-base:

depends star:

depends xxmotif:

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 mockinbird

and update with::

   mamba update mockinbird

To create a new environment, run:

mamba create --name myenvname mockinbird

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/mockinbird:<tag>

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

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Link to this page

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