:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'integron_finder' .. highlight: bash integron_finder =============== .. conda:recipe:: integron_finder :replaces_section_title: :noindex: Integron Finder aims at detecting integrons in DNA sequences :homepage: https://github.com/gem-pasteur/Integron_Finder/ :documentation: https://integronfinder.readthedocs.io/en/latest/ :license: GPL3 / GPL-3.0-or-later :recipe: /`integron_finder `_/`meta.yaml `_ :links: doi: :doi:`10.3390/microorganisms10040700` .. conda:package:: integron_finder |downloads_integron_finder| |docker_integron_finder| :versions: ``2.0.3-1``,  ``2.0.3-0``,  ``2.0.2-0``,  ``2.0.1-0``,  ``2.0-0``,  ``2.0rc6-0`` :depends biopython: ``>=1.82`` :depends colorlog: :depends hmmer: ``>=3.1b2,<=3.3.2`` :depends infernal: ``>=1.1.2,<=1.1.4`` :depends matplotlib-base: ``>=3.8`` :depends numpy: ``>=1.26`` :depends pandas: ``>=2`` :depends prodigal: ``>=2.6.3`` :depends python: ``>=3.10`` :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 integron_finder and update with:: mamba update integron_finder To create a new environment, run:: mamba create --name myenvname integron_finder 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/integron_finder: (see `integron_finder/tags`_ for valid values for ````) .. |downloads_integron_finder| image:: https://img.shields.io/conda/dn/bioconda/integron_finder.svg?style=flat :target: https://anaconda.org/bioconda/integron_finder :alt: (downloads) .. |docker_integron_finder| image:: https://quay.io/repository/biocontainers/integron_finder/status :target: https://quay.io/repository/biocontainers/integron_finder .. _`integron_finder/tags`: https://quay.io/repository/biocontainers/integron_finder?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/integron_finder/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/integron_finder/README.html