:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'trimal' .. highlight: bash trimal ====== .. conda:recipe:: trimal :replaces_section_title: :noindex: A tool for the automated removal of spurious sequences or poorly aligned regions from a multiple sequence alignment :homepage: https://trimal.readthedocs.io :developer docs: https://github.com/inab/trimal :license: GPL3 / GPL-3.0-or-later :recipe: /`trimal `_/`meta.yaml `_ :links: biotools: :biotools:`trimAl`, doi: :doi:`10.1093/bioinformatics/btp348` .. conda:package:: trimal |downloads_trimal| |docker_trimal| :versions: .. raw:: html
1.5.0-21.5.0-11.5.0-01.4.1-91.4.1-81.4.1-71.4.1-61.4.1-51.4.1-4 ``1.5.0-2``,  ``1.5.0-1``,  ``1.5.0-0``,  ``1.4.1-9``,  ``1.4.1-8``,  ``1.4.1-7``,  ``1.4.1-6``,  ``1.4.1-5``,  ``1.4.1-4``,  ``1.4.1-3``,  ``1.4.1-2``,  ``1.4.1-1``,  ``1.4.1-0`` .. raw:: html
:depends libgcc: ``>=13`` :depends libstdcxx: ``>=13`` :requirements: :additional platforms: .. raw:: html linux-aarch64osx-arm64 .. 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 trimal and update with:: mamba update trimal To create a new environment, run:: mamba create --name myenvname trimal 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/trimal: (see `trimal/tags`_ for valid values for ````) .. |downloads_trimal| image:: https://img.shields.io/conda/dn/bioconda/trimal.svg?style=flat :target: https://anaconda.org/bioconda/trimal :alt: (downloads) .. |docker_trimal| image:: https://quay.io/repository/biocontainers/trimal/status :target: https://quay.io/repository/biocontainers/trimal .. _`trimal/tags`: https://quay.io/repository/biocontainers/trimal?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/trimal/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/trimal/README.html