recipe pegas

PeGAS is a Snakemake pipeline for genome analysis (with a lightweight CLI option)

Homepage:

https://github.com/liviurotiul/PeGAS

Documentation:

https://github.com/liviurotiul/PeGAS#readme

Developer docs:

https://github.com/liviurotiul/PeGAS/issues

License:

GPL / GPL-2.0-or-later

Recipe:

/pegas/meta.yaml

PeGAS is a Snakemake pipeline for genome analysis. It is designed to be lightweight, easy to install, and easy to use. A separate lite entrypoint is provided for running the pipeline without Snakemake.

package pegas

(downloads) docker_pegas

versions:
1.2.1-0,  1.1.0-0,  1.0.9-0,  1.0.8-0,  1.0.7-0,  1.0.6-0,  1.0.5-0,  1.0.4-0,  1.0.3-0, 

1.2.1-0,  1.1.0-0,  1.0.9-0,  1.0.8-0,  1.0.7-0,  1.0.6-0,  1.0.5-0,  1.0.4-0,  1.0.3-0,  1.0.2-0,  1.0.1-0,  0.2.13-0

depends pegas-lite:

1.2.1.*

depends python:

depends snakemake-minimal:

>=7.32.4

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 pegas

and update with::

   mamba update pegas

To create a new environment, run:

mamba create --name myenvname pegas

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/pegas:<tag>

(see `pegas/tags`_ for valid values for ``<tag>``)
package pegas-lite

(downloads) docker_pegas-lite

versions:

1.2.1-0

depends beautifulsoup4:

>=4.12.3

depends conda:

>=24.7.1

depends jinja2:

>=3.0

depends matplotlib-base:

>=3.9.2

depends networkx:

>=3.2

depends numpy:

depends pandas:

>=1.3.5

depends plotly:

>=5.0.0,<6

depends python:

>=3.10

depends tqdm:

>=4.66.5

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 pegas-lite

and update with::

   mamba update pegas-lite

To create a new environment, run:

mamba create --name myenvname pegas-lite

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/pegas-lite:<tag>

(see `pegas-lite/tags`_ for valid values for ``<tag>``)

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Link to this page

Render an install-with-bioconda badge with the following MarkDown:

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