:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'semibin' .. highlight: bash semibin ======= .. conda:recipe:: semibin :replaces_section_title: :noindex: Metagenomic binning with semi\-supervised siamese neural networks :homepage: https://github.com/BigDataBiology/SemiBin :documentation: https://semibin.readthedocs.io/en/latest/ :license: MIT / MIT :recipe: /`semibin `_/`meta.yaml `_ :links: doi: :doi:`10.1038/s41467-022-29843-y`, doi: :doi:`10.1093/bioinformatics/btad209`, biotools: :biotools:`semibin` .. conda:package:: semibin |downloads_semibin| |docker_semibin| :versions: .. raw:: html
2.1.0-02.0.2-02.0.1-02.0.0-12.0.0-01.5.1-01.5.0-11.5.0-01.4.0-0 ``2.1.0-0``,  ``2.0.2-0``,  ``2.0.1-0``,  ``2.0.0-1``,  ``2.0.0-0``,  ``1.5.1-0``,  ``1.5.0-1``,  ``1.5.0-0``,  ``1.4.0-0``,  ``1.3.1-0``,  ``1.3.0-0``,  ``1.2.0-0``,  ``1.1.1-1``,  ``1.1.1-0``,  ``1.1.0-0``,  ``1.0.3-0``,  ``1.0.2-0``,  ``1.0.1-0``,  ``1.0.0-0``,  ``0.7.0-0``,  ``0.6.0-0``,  ``0.5.0-1``,  ``0.5.0-0``,  ``0.4.0-0``,  ``0.3-0``,  ``0.2-1``,  ``0.2-0`` .. raw:: html
:depends bedtools: :depends coloredlogs: :depends hmmer: :depends mmseqs2: ``13.45111.*`` :depends numexpr: :depends numpy: :depends pandas: :depends prodigal: :depends python: ``>=3.7`` :depends python-igraph: :depends pytorch: :depends pyyaml: :depends requests: :depends samtools: :depends scikit-learn: :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 semibin and update with:: mamba update semibin To create a new environment, run:: mamba create --name myenvname semibin 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/semibin: (see `semibin/tags`_ for valid values for ````) .. |downloads_semibin| image:: https://img.shields.io/conda/dn/bioconda/semibin.svg?style=flat :target: https://anaconda.org/bioconda/semibin :alt: (downloads) .. |docker_semibin| image:: https://quay.io/repository/biocontainers/semibin/status :target: https://quay.io/repository/biocontainers/semibin .. _`semibin/tags`: https://quay.io/repository/biocontainers/semibin?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/semibin/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/semibin/README.html