recipe zarp

User-friendly command-line interface for the ZARP RNA-Seq analysis pipeline

Homepage:

https://github.com/zavolanlab/zarp-cli

Documentation:

https://zavolanlab.github.io/zarp-cli

Developer docs:

https://github.com/zavolanlab/zarp-cli/tree/dev

License:

APACHE / Apache License 2.0

Recipe:

/zarp/meta.yaml

package zarp

versions:

1.0.0-0,  0.1.1-0

depends addict:

>=2.4.0

depends bidict:

>=0.22.0

depends email-validator:

>=1.2.1

depends genomepy:

>=0.15.0

depends jsonref:

>=0.2

depends numpy:

>=1.22,<1.25

depends pandas:

>=1.3.5,<1.4.0

depends pydantic:

>=1.9.2,<2.0.0

depends pygments:

>=2.8.0

depends python:

>=3.9,<=3.10

depends rich:

>=12.5.1

depends snakemake:

>=7.19.1

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 zarp

and update with::

   mamba update zarp

To create a new environment, run:

mamba create --name myenvname zarp

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/zarp:<tag>

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

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