recipe piret

A tool for conducting RNA seq analysis.

Homepage:

https://github.com/mshakya/PyPiReT

License:

GPLV2

Recipe:

/piret/meta.yaml

Links:

biotools: piret

package piret

versions:

0.3.4-1,  0.3.4-0

depends argparse:

depends bamtools:

>=2.4.0

depends bioconductor-deseq2:

>=1.20.0

depends bioconductor-edger:

>=3.22.5

depends biopython:

>=1.7.0

depends hisat2:

>=2.0.5

depends luigi:

>=2.7.9

depends pandas:

>=0.23.4

depends plumbum:

>=1.6.0

depends python:

depends r:

depends samtools:

>=1.3.1

depends stringtie:

>=1.3.3

depends subread:

>=1.5.0

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 piret

and update with::

   mamba update piret

To create a new environment, run:

mamba create --name myenvname piret

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/piret:<tag>

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

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