:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'metacoag' .. highlight: bash metacoag ======== .. conda:recipe:: metacoag :replaces_section_title: :noindex: MetaCoAG\: Binning Metagenomic Contigs via Composition\, Coverage and Assembly Graphs :homepage: https://github.com/metagentools/MetaCoAG :documentation: https://metacoag.readthedocs.io/ :license: GPL / GPL-3.0 :recipe: /`metacoag `_/`meta.yaml `_ :links: doi: :doi:`10.1007/978-3-031-04749-7_5` MetaCoAG is a metagenomic contig binning tool that makes use of the connectivity information found in assembly graphs. .. conda:package:: metacoag |downloads_metacoag| |docker_metacoag| :versions: ``1.1.4-0``,  ``1.1.3-0``,  ``1.1.2-0``,  ``1.1.1-0``,  ``1.1-0`` :depends biopython: :depends cairocffi: :depends click: :depends fraggenescan: :depends hmmer: :depends networkx: :depends numpy: :depends pandas: :depends python: :depends python-igraph: :depends scipy: :depends tqdm: :requirements: .. rubric:: Installation You need a conda-compatible package manager (currently either `micromamba `_, `mamba `_, or `conda `_) and the Bioconda channel already activated (see :ref:`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 metacoag and update with:: mamba update metacoag To create a new environment, run:: mamba create --name myenvname metacoag 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/metacoag: (see `metacoag/tags`_ for valid values for ````) .. |downloads_metacoag| image:: https://img.shields.io/conda/dn/bioconda/metacoag.svg?style=flat :target: https://anaconda.org/bioconda/metacoag :alt: (downloads) .. |docker_metacoag| image:: https://quay.io/repository/biocontainers/metacoag/status :target: https://quay.io/repository/biocontainers/metacoag .. _`metacoag/tags`: https://quay.io/repository/biocontainers/metacoag?tab=tags .. raw:: html Download stats ----------------- .. raw:: html :file: ../../templates/package_dashboard.html 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/metacoag/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/metacoag/README.html