:orphan: .. only available via index, not via toctree .. title:: Package Recipe 't-coffee' .. highlight: bash t-coffee ======== .. conda:recipe:: t_coffee :replaces_section_title: :noindex: A collection of tools for Multiple Alignments of DNA\, RNA\, Protein Sequence :homepage: http://www.tcoffee.org/Projects/tcoffee/ :license: GPL-2.0-only :recipe: /`t_coffee `_/`meta.yaml `_ :links: doi: :doi:`10.1006/jmbi.2000.4042` .. conda:package:: t-coffee |downloads_t-coffee| |docker_t-coffee| :versions: .. raw:: html
13.46.1.b8b01e06-013.46.0.919e8c6b-413.46.0.919e8c6b-313.46.0.919e8c6b-213.46.0.919e8c6b-113.46.0.919e8c6b-013.45.0.4846264-713.45.0.4846264-613.45.0.4846264-5 ``13.46.1.b8b01e06-0``,  ``13.46.0.919e8c6b-4``,  ``13.46.0.919e8c6b-3``,  ``13.46.0.919e8c6b-2``,  ``13.46.0.919e8c6b-1``,  ``13.46.0.919e8c6b-0``,  ``13.45.0.4846264-7``,  ``13.45.0.4846264-6``,  ``13.45.0.4846264-5``,  ``13.45.0.4846264-4``,  ``13.45.0.4846264-3``,  ``13.45.0.4846264-2``,  ``13.45.0.4846264-1``,  ``13.45.0.4846264-0``,  ``13.39.0.d675aed-2``,  ``13.39.0.d675aed-1``,  ``13.39.0.d675aed-0``,  ``12.00.7fb08c2-2``,  ``12.00.7fb08c2-1``,  ``12.00.7fb08c2-0``,  ``11.00.8cbe486-0`` .. raw:: html
:depends clustalo: ``1.2.4`` :depends clustalw: ``2.1`` :depends consan: ``1.2`` :depends dialign-tx: ``>=1.0.2`` :depends famsa: ``2.2.3`` :depends kalign2: ``2.04`` :depends libgcc: ``>=13`` :depends libgfortran: :depends libgfortran5: ``>=13.3.0`` :depends libstdcxx: ``>=13`` :depends mafft: ``7.526`` :depends muscle: ``3.8.1551`` :depends mustang: ``>=3.2.3`` :depends pasta: ``1.9.2`` :depends perl: ``5.32.1`` :depends phylip: ``3.697`` :depends poa: ``>=2.0`` :depends prank: ``170427`` :depends probcons: ``1.12`` :depends probconsrna: ``1.10`` :depends sap: ``1.1.3`` :depends tmalign: ``20170708`` :depends viennarna: ``2.7.0`` :requirements: :additional platforms: .. raw:: html linux-aarch64 .. 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 t-coffee and update with:: mamba update t-coffee To create a new environment, run:: mamba create --name myenvname t-coffee 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/t-coffee: (see `t-coffee/tags`_ for valid values for ````) .. |downloads_t-coffee| image:: https://img.shields.io/conda/dn/bioconda/t-coffee.svg?style=flat :target: https://anaconda.org/bioconda/t-coffee :alt: (downloads) .. |docker_t-coffee| image:: https://quay.io/repository/biocontainers/t-coffee/status :target: https://quay.io/repository/biocontainers/t-coffee .. _`t-coffee/tags`: https://quay.io/repository/biocontainers/t-coffee?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/t-coffee/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/t-coffee/README.html