:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'trinotate' .. highlight: bash trinotate ========= .. conda:recipe:: trinotate :replaces_section_title: :noindex: Trinotate is a comprehensive annotation suite designed for automatic functional annotation of transcriptomes\, particularly de novo assembled transcriptomes\, from model or non\-model organisms :homepage: https://trinotate.github.io/ :license: BSD-3-Clause :recipe: /`trinotate `_/`meta.yaml `_ :links: biotools: :biotools:`trinotate`, usegalaxy-eu: :usegalaxy-eu:`trinotate` .. conda:package:: trinotate |downloads_trinotate| |docker_trinotate| :versions: .. raw:: html
4.0.2-04.0.1-04.0.0-03.2.2-13.2.2-03.2.1-13.2.1-03.2.0-13.2.0-0 ``4.0.2-0``,  ``4.0.1-0``,  ``4.0.0-0``,  ``3.2.2-1``,  ``3.2.2-0``,  ``3.2.1-1``,  ``3.2.1-0``,  ``3.2.0-1``,  ``3.2.0-0``,  ``3.1.1-7``,  ``3.1.1-6``,  ``3.1.1-5``,  ``3.1.1-4``,  ``3.1.1-0``,  ``3.1.0-0``,  ``3.0.2-0``,  ``3.0.1-1``,  ``3.0.1-0`` .. raw:: html
:depends blast: :depends diamond: :depends hmmer: :depends infernal: :depends perl: ``>=5.32.1,<6.0a0 *_perl5`` :depends perl-app-cpanminus: :depends perl-dbd-sqlite: :depends perl-dbi: :depends perl-file-find-rule: :depends perl-module-build: :depends sqlite: :depends wget: :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 trinotate and update with:: mamba update trinotate To create a new environment, run:: mamba create --name myenvname trinotate 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/trinotate: (see `trinotate/tags`_ for valid values for ````) .. |downloads_trinotate| image:: https://img.shields.io/conda/dn/bioconda/trinotate.svg?style=flat :target: https://anaconda.org/bioconda/trinotate :alt: (downloads) .. |docker_trinotate| image:: https://quay.io/repository/biocontainers/trinotate/status :target: https://quay.io/repository/biocontainers/trinotate .. _`trinotate/tags`: https://quay.io/repository/biocontainers/trinotate?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/trinotate/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/trinotate/README.html