:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'dragonflye' .. highlight: bash dragonflye ========== .. conda:recipe:: dragonflye :replaces_section_title: :noindex: Microbial assembly pipeline for Nanopore reads :homepage: https://github.com/rpetit3/dragonflye :license: GPL2 :recipe: /`dragonflye `_/`meta.yaml `_ :links: biotools: :biotools:`dragonflye`, usegalaxy-eu: :usegalaxy-eu:`dragonflye` .. conda:package:: dragonflye |downloads_dragonflye| |docker_dragonflye| :versions: .. raw:: html
1.2.0-01.1.2-01.1.1-01.1.0-01.0.14-01.0.13-01.0.12-01.0.11-01.0.10-0 ``1.2.0-0``,  ``1.1.2-0``,  ``1.1.1-0``,  ``1.1.0-0``,  ``1.0.14-0``,  ``1.0.13-0``,  ``1.0.12-0``,  ``1.0.11-0``,  ``1.0.10-0``,  ``1.0.9-0``,  ``1.0.8-0``,  ``1.0.7-0``,  ``1.0.6-0``,  ``1.0.5-0``,  ``1.0.4-0``,  ``1.0.3-0``,  ``1.0.2-0``,  ``1.0.1-0``,  ``1.0.0-0`` .. raw:: html
:depends any2fasta: ``>=0.4.2`` :depends assembly-scan: ``>=1.0.0`` :depends bwa: :depends dnaapler: :depends fastp: :depends flye: ``>=2.9.2`` :depends kmc: ``>=3.1`` :depends medaka: ``>=1.11.0`` :depends miniasm: ``>=0.3_r179`` :depends nanoq: ``>=0.10.0`` :depends perl: ``>=5.26`` :depends perl-file-spec: :depends perl-findbin: :depends pigz: ``>=2.6`` :depends pilon: :depends polypolish: ``>=0.6.0`` :depends porechop: :depends racon: ``>=1.5.0`` :depends rasusa: ``>=0.7.1`` :depends raven-assembler: ``>=1.8.3`` :depends samclip: :depends samtools: :depends seqtk: ``>=1.4`` :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 dragonflye and update with:: mamba update dragonflye To create a new environment, run:: mamba create --name myenvname dragonflye 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/dragonflye: (see `dragonflye/tags`_ for valid values for ````) .. |downloads_dragonflye| image:: https://img.shields.io/conda/dn/bioconda/dragonflye.svg?style=flat :target: https://anaconda.org/bioconda/dragonflye :alt: (downloads) .. |docker_dragonflye| image:: https://quay.io/repository/biocontainers/dragonflye/status :target: https://quay.io/repository/biocontainers/dragonflye .. _`dragonflye/tags`: https://quay.io/repository/biocontainers/dragonflye?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/dragonflye/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/dragonflye/README.html