:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'shovill' .. highlight: bash shovill ======= .. conda:recipe:: shovill :replaces_section_title: :noindex: Microbial assembly pipeline for Illumina paired\-end reads :homepage: https://github.com/tseemann/shovill :license: GPL2 :recipe: /`shovill `_/`meta.yaml `_ :links: biotools: :biotools:`shovill`, usegalaxy-eu: :usegalaxy-eu:`shovill` .. conda:package:: shovill |downloads_shovill| |docker_shovill| :versions: .. raw:: html
1.1.0-11.1.0-01.0.9-01.0.4-11.0.4-01.0.1-01.0.0-00.9.0-10.9.0-0 ``1.1.0-1``,  ``1.1.0-0``,  ``1.0.9-0``,  ``1.0.4-1``,  ``1.0.4-0``,  ``1.0.1-0``,  ``1.0.0-0``,  ``0.9.0-1``,  ``0.9.0-0``,  ``0.8.0-0``,  ``0.7.1-2``,  ``0.7.1-1``,  ``0.7.1-0`` .. raw:: html
:depends bwa: ``>=0.7.17`` :depends flash: ``>=1.2`` :depends kmc: ``>=3.1`` :depends lighter: ``>=1.1`` :depends megahit: ``>=1.2.7`` :depends perl: :depends perl-file-spec: :depends perl-findbin: :depends pigz: :depends pilon: ``>=1.22`` :depends samclip: ``>=0.4`` :depends samtools: ``>=1.10`` :depends seqtk: ``>=1.3`` :depends skesa: ``>=2.2`` :depends spades: ``>=3.14`` :depends trimmomatic: ``>=0.36`` :depends velvet: ``>=1.2.10`` :requirements: .. rubric:: Installation With an activated Bioconda channel (see :ref:`set-up-channels`), install with:: conda install shovill and update with:: conda update shovill or use the docker container:: docker pull quay.io/biocontainers/shovill: (see `shovill/tags`_ for valid values for ````) .. |downloads_shovill| image:: https://img.shields.io/conda/dn/bioconda/shovill.svg?style=flat :target: https://anaconda.org/bioconda/shovill :alt: (downloads) .. |docker_shovill| image:: https://quay.io/repository/biocontainers/shovill/status :target: https://quay.io/repository/biocontainers/shovill .. _`shovill/tags`: https://quay.io/repository/biocontainers/shovill?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/shovill/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/shovill/README.html