:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'kraken-ea' .. highlight: bash kraken-ea ========= .. conda:recipe:: kraken-ea :replaces_section_title: :noindex: Kraken is a system for assigning taxonomic labels to short DNA sequences\, usually obtained through metagenomic studies. This is a modified version allowing for splitting of fastq files based on read classifications. :homepage: https://github.com/ExpressionAnalysis/kraken/tree/v0.10.5-beta-ea.2 :license: GPLv3 :recipe: /`kraken-ea `_/`meta.yaml `_ .. conda:package:: kraken-ea |downloads_kraken-ea| |docker_kraken-ea| :versions: ``0.10.5ea.3-3``,  ``0.10.5ea.3-2``,  ``0.10.5ea.3-1``,  ``0.10.5ea.3-0`` :depends jellyfish: ``1.1.11.*`` :depends libgcc-ng: ``>=4.9`` :depends perl: ``>=5.26.2,<5.27.0a0`` :depends zlib: ``>=1.2.11,<1.3.0a0`` :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 kraken-ea and update with:: mamba update kraken-ea To create a new environment, run:: mamba create --name myenvname kraken-ea 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/kraken-ea: (see `kraken-ea/tags`_ for valid values for ````) .. |downloads_kraken-ea| image:: https://img.shields.io/conda/dn/bioconda/kraken-ea.svg?style=flat :target: https://anaconda.org/bioconda/kraken-ea :alt: (downloads) .. |docker_kraken-ea| image:: https://quay.io/repository/biocontainers/kraken-ea/status :target: https://quay.io/repository/biocontainers/kraken-ea .. _`kraken-ea/tags`: https://quay.io/repository/biocontainers/kraken-ea?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/kraken-ea/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/kraken-ea/README.html