:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'metachip' .. highlight: bash metachip ======== .. conda:recipe:: metachip :replaces_section_title: :noindex: HGT detection pipeline :homepage: https://github.com/songweizhi/MetaCHIP :license: GPL3 / GPL3+ :recipe: /`metachip `_/`meta.yaml `_ :links: doi: :doi:`10.1186/s40168-019-0649-y` .. conda:package:: metachip |downloads_metachip| |docker_metachip| :versions: .. raw:: html
1.10.13-01.10.12-01.10.10-01.10.9-01.10.8-01.10.6-01.10.5-01.10.4-01.10.3-0 ``1.10.13-0``,  ``1.10.12-0``,  ``1.10.10-0``,  ``1.10.9-0``,  ``1.10.8-0``,  ``1.10.6-0``,  ``1.10.5-0``,  ``1.10.4-0``,  ``1.10.3-0``,  ``1.10.2-0``,  ``1.10.0-0`` .. raw:: html
:depends biopython: ``<=1.77`` :depends blast: :depends ete3: :depends fasttree: :depends hmmer: :depends mafft: :depends matplotlib-base: :depends numpy: :depends prodigal: :depends python: :depends r-ape: :depends r-base: :depends r-circlize: :depends r-optparse: :depends reportlab: :depends scipy: :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 metachip and update with:: mamba update metachip To create a new environment, run:: mamba create --name myenvname metachip 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/metachip: (see `metachip/tags`_ for valid values for ````) .. |downloads_metachip| image:: https://img.shields.io/conda/dn/bioconda/metachip.svg?style=flat :target: https://anaconda.org/bioconda/metachip :alt: (downloads) .. |docker_metachip| image:: https://quay.io/repository/biocontainers/metachip/status :target: https://quay.io/repository/biocontainers/metachip .. _`metachip/tags`: https://quay.io/repository/biocontainers/metachip?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/metachip/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/metachip/README.html