:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'lotus2' .. highlight: bash lotus2 ====== .. conda:recipe:: lotus2 :replaces_section_title: :noindex: LotuS2 is a lightweight complete 16S\/18S\/ITS pipeline :homepage: http://lotus2.earlham.ac.uk/ :developer docs: https://github.com/hildebra/lotus2/ :license: GPL-3.0-or-later :recipe: /`lotus2 `_/`meta.yaml `_ .. conda:package:: lotus2 |downloads_lotus2| |docker_lotus2| :versions: .. raw:: html
2.21-02.19-02.17-02.16-02.14-02.12-12.12-02.11-02.09.2-0 ``2.21-0``,  ``2.19-0``,  ``2.17-0``,  ``2.16-0``,  ``2.14-0``,  ``2.12-1``,  ``2.12-0``,  ``2.11-0``,  ``2.09.2-0``,  ``2.09.1-0``,  ``2.09-0``,  ``2.08-0``,  ``2.07-0``,  ``2.06-0``,  ``2.05.1-0``,  ``2.04-1``,  ``2.04-0``,  ``2.02-0``,  ``2.01-1``,  ``2.01-0`` .. raw:: html
:depends bioconductor-dada2: :depends bioconductor-phyloseq: :depends blast: :depends cd-hit: :depends clustalo: :depends fasttree: :depends infernal: :depends iqtree: :depends itsx: :depends lambda: ``<2`` :depends lca: ``>=0.23`` :depends mafft: :depends minimap2: :depends perl: :depends perl-getopt-long: :depends r-base: ``4.1.*`` :depends r-dplyr: :depends rdp_classifier: :depends rtk: :depends sdm: ``2.02`` :depends swarm: :depends unzip: :depends vsearch: :depends wget: :depends zip: :requirements: .. rubric:: Installation With an activated Bioconda channel (see :ref:`set-up-channels`), install with:: conda install lotus2 and update with:: conda update lotus2 or use the docker container:: docker pull quay.io/biocontainers/lotus2: (see `lotus2/tags`_ for valid values for ````) .. |downloads_lotus2| image:: https://img.shields.io/conda/dn/bioconda/lotus2.svg?style=flat :target: https://anaconda.org/bioconda/lotus2 :alt: (downloads) .. |docker_lotus2| image:: https://quay.io/repository/biocontainers/lotus2/status :target: https://quay.io/repository/biocontainers/lotus2 .. _`lotus2/tags`: https://quay.io/repository/biocontainers/lotus2?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/lotus2/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/lotus2/README.html