recipe metafun

Scalable and agile analysis pipeline for metagenomic and comparative genomic analysis

Homepage:

https://github.com/aababc1/metaFun

Documentation:

https://metafun-doc.readthedocs.io/

License:

MIT

Recipe:

/metafun/meta.yaml

metaFun is a comprehensive pipeline for metagenomic analysis including quality control, assembly, binning, taxonomy profiling, and functional analysis. Version 1.0.0 adds WMS_STRAIN module for strain-level microbial diversity analysis.

package metafun

(downloads) docker_metafun

versions:

1.0.0-0,  0.3.0-0,  0.2.0-0,  0.1.1-0

depends apptainer:

1.3.0.*

depends dash:

2.17.1.*

depends dash-bootstrap-components:

depends dash-core-components:

depends dash-daq:

depends dash-html-components:

depends dash-table:

depends nextflow:

24.04.2.*

depends numpy:

>=1.26

depends pandas:

>=2.0

depends plotly:

>=5.0

depends python:

>=3.10

depends squashfuse:

depends sylph:

0.6.1.*

depends tqdm:

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 metafun

and update with::

   mamba update metafun

To create a new environment, run:

mamba create --name myenvname metafun

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/metafun:<tag>

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

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Link to this page

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

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/metafun/README.html)