:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'mitoz' .. highlight: bash mitoz ===== .. conda:recipe:: mitoz :replaces_section_title: :noindex: MitoZ\: A toolkit for assembly\, annotation\, and visualization of animal mitochondrial genomes :homepage: https://github.com/linzhi2013/MitoZ :license: GPLv3 :recipe: /`mitoz `_/`meta.yaml `_ .. conda:package:: mitoz |downloads_mitoz| |docker_mitoz| :versions: .. raw:: html
3.6-13.6-03.5-03.4-13.4-03.3-13.3-03.2-03.1-0 ``3.6-1``,  ``3.6-0``,  ``3.5-0``,  ``3.4-1``,  ``3.4-0``,  ``3.3-1``,  ``3.3-0``,  ``3.2-0``,  ``3.1-0``,  ``3.0-0`` .. raw:: html
:depends biopython: :depends blast: :depends bs4: :depends bwa: :depends circos: ``0.69.*`` :depends coreutils: :depends ete3: ``>=3.1.2`` :depends fastp: :depends hmmer: ``3.1b2.*`` :depends html5lib: :depends infernal: ``1.1.1.*`` :depends libgd: :depends megahit: :depends openjdk: :depends perl: ``5.32.*`` :depends perl-app-cpanminus: :depends perl-bioperl: :depends perl-clone: :depends perl-config-general: :depends perl-encode-locale: :depends perl-list-moreutils: :depends perl-math-bezier: :depends perl-math-round: :depends perl-math-vecstat: :depends perl-params-validate: :depends perl-set-intspan: :depends perl-statistics-basic: :depends perl-statistics-descriptive: :depends pkgconfig: :depends python: ``>=3.6,<3.9`` :depends requests: :depends samtools: :depends seqkit: :depends spades: ``>=3.15.4`` :depends tbl2asn: :depends tiara: :depends wise2: :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 mitoz and update with:: mamba update mitoz To create a new environment, run:: mamba create --name myenvname mitoz 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/mitoz: (see `mitoz/tags`_ for valid values for ````) .. |downloads_mitoz| image:: https://img.shields.io/conda/dn/bioconda/mitoz.svg?style=flat :target: https://anaconda.org/bioconda/mitoz :alt: (downloads) .. |docker_mitoz| image:: https://quay.io/repository/biocontainers/mitoz/status :target: https://quay.io/repository/biocontainers/mitoz .. _`mitoz/tags`: https://quay.io/repository/biocontainers/mitoz?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/mitoz/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/mitoz/README.html