recipe curare

A Customizable and Reproducible Analysis Pipeline for RNA-Seq Experiments.

Homepage:

https://github.com/pblumenkamp/Curare

License:

GPL3 / GPL3

Recipe:

/curare/meta.yaml

Curare is a freely available analysis pipeline for reproducible, high-throughput, bacterial RNA-Seq experiments. Define standardized pipelines customized for your specific workflow without the necessity of installing all the tools by yourself. Curare is implemented in Python and uses the power of Snakemake and Conda to build and execute the defined workflows. Its modulized structure and the simplicity of Snakemake enables developers to create new and advanced workflow steps.

package curare

versions:

0.6.0-0,  0.5.1-0,  0.5.0-0,  0.4.5-0,  0.4.4-0,  0.4.3-0

depends biopython:

1.83.*

depends docopt:

0.6.2.*

depends mamba:

1.5.3.*

depends progressbar2:

4.3.2.*

depends python:

3.10.*

depends pyyaml:

6.0.*

depends snakemake:

7.32.3.*

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 curare

and update with::

   mamba update curare

To create a new environment, run:

mamba create --name myenvname curare

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/curare:<tag>

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

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