:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'graphbin' .. highlight: bash graphbin ======== .. conda:recipe:: graphbin :replaces_section_title: :noindex: GraphBin\: Refined binning of metagenomic contigs using assembly graphs :homepage: https://github.com/Vini2/GraphBin :documentation: https://graphbin.readthedocs.io/ :license: BSD-3 :recipe: /`graphbin `_/`meta.yaml `_ :links: doi: :doi:`10.1093/bioinformatics/btaa180` GraphBin is a metagenomic contig bin\-refinement tool that makes use of assembly graphs. .. conda:package:: graphbin |downloads_graphbin| |docker_graphbin| :versions: ``1.7.1-0``,  ``1.7.0-0``,  ``1.6.1-0``,  ``1.5-0`` :depends cairocffi: :depends click: :depends cogent3: :depends python: ``>=3.7.1,<3.11`` :depends python-igraph: :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 graphbin and update with:: mamba update graphbin To create a new environment, run:: mamba create --name myenvname graphbin 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/graphbin: (see `graphbin/tags`_ for valid values for ````) .. |downloads_graphbin| image:: https://img.shields.io/conda/dn/bioconda/graphbin.svg?style=flat :target: https://anaconda.org/bioconda/graphbin :alt: (downloads) .. |docker_graphbin| image:: https://quay.io/repository/biocontainers/graphbin/status :target: https://quay.io/repository/biocontainers/graphbin .. _`graphbin/tags`: https://quay.io/repository/biocontainers/graphbin?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/graphbin/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/graphbin/README.html