:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'lorikeet-genome' .. highlight: bash lorikeet-genome =============== .. conda:recipe:: lorikeet-genome :replaces_section_title: :noindex: Metagenomic Variant Calling \& Diversity Analysis :homepage: https://github.com/rhysnewell/Lorikeet :documentation: https://rhysnewell.github.io/Lorikeet/ :license: GPL3 :recipe: /`lorikeet-genome `_/`meta.yaml `_ Lorikeet aims to call variants in metagenomes using local reassembly of haplotypes. .. conda:package:: lorikeet-genome |downloads_lorikeet-genome| |docker_lorikeet-genome| :versions: .. raw:: html
0.7.1-00.7.0-00.6.6-00.5.0-00.4.0-00.3.7-10.3.7-00.3.6-10.3.6-0 ``0.7.1-0``,  ``0.7.0-0``,  ``0.6.6-0``,  ``0.5.0-0``,  ``0.4.0-0``,  ``0.3.7-1``,  ``0.3.7-0``,  ``0.3.6-1``,  ``0.3.6-0``,  ``0.3.5-0``,  ``0.3.4-0``,  ``0.3.2-0`` .. raw:: html
:depends bcftools: :depends bwa: ``>=0.7.17`` :depends dashing: :depends fastani: :depends gsl: ``>=2.7,<2.8.0a0`` :depends htslib: ``>=1.15.1,<1.16.0a0`` :depends libblas: ``>=3.8.0,<4.0a0`` :depends libgcc-ng: ``>=12`` :depends libstdcxx-ng: ``>=12`` :depends libzlib: ``>=1.2.12,<1.3.0a0`` :depends matplotlib-base: :depends minimap2: :depends ngmlr: :depends numpy: :depends openssl: ``>=1.1.1q,<1.1.2a`` :depends parallel: :depends prodigal: :depends pysam: ``>=0.16`` :depends python: ``>=3.9`` :depends samtools: ``>=1.9`` :depends scikit-bio: :depends scikit-learn: :depends seaborn: :depends starcode: :depends svim: :depends vt: :depends zlib: ``>=1.2.12,<1.3.0a0`` :requirements: .. rubric:: Installation With an activated Bioconda channel (see :ref:`set-up-channels`), install with:: conda install lorikeet-genome and update with:: conda update lorikeet-genome or use the docker container:: docker pull quay.io/biocontainers/lorikeet-genome: (see `lorikeet-genome/tags`_ for valid values for ````) .. |downloads_lorikeet-genome| image:: https://img.shields.io/conda/dn/bioconda/lorikeet-genome.svg?style=flat :target: https://anaconda.org/bioconda/lorikeet-genome :alt: (downloads) .. |docker_lorikeet-genome| image:: https://quay.io/repository/biocontainers/lorikeet-genome/status :target: https://quay.io/repository/biocontainers/lorikeet-genome .. _`lorikeet-genome/tags`: https://quay.io/repository/biocontainers/lorikeet-genome?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/lorikeet-genome/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/lorikeet-genome/README.html