:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'medaka' .. highlight: bash medaka ====== .. conda:recipe:: medaka :replaces_section_title: :noindex: Neural network sequence error correction. :homepage: https://github.com/nanoporetech/medaka :documentation: https://nanoporetech.github.io/medaka/index.html :license: OTHER / Mozilla Public License 2.0 :recipe: /`medaka `_/`meta.yaml `_ :links: usegalaxy-eu: :usegalaxy-eu:`medaka_consensus` .. conda:package:: medaka |downloads_medaka| |docker_medaka| :versions: .. raw:: html
1.6.1-11.6.1-01.6.0-01.5.0-21.5.0-11.5.0-01.4.4-01.4.3-01.4.2-0 ``1.6.1-1``,  ``1.6.1-0``,  ``1.6.0-0``,  ``1.5.0-2``,  ``1.5.0-1``,  ``1.5.0-0``,  ``1.4.4-0``,  ``1.4.3-0``,  ``1.4.2-0``,  ``1.4.1-0``,  ``1.3.3-0``,  ``1.3.2-0``,  ``1.3.0-0``,  ``1.2.6-1``,  ``1.2.6-0``,  ``1.2.5-0``,  ``1.2.3-0``,  ``1.2.2-0``,  ``1.2.1-1``,  ``1.2.1-0``,  ``1.2.0-0``,  ``1.1.3-0``,  ``1.1.2-0``,  ``1.1.1-0``,  ``1.0.3-1``,  ``1.0.3-0``,  ``1.0.1-0``,  ``1.0.0-0``,  ``0.12.1-0``,  ``0.11.5-1``,  ``0.11.5-0``,  ``0.11.4-0``,  ``0.11.3-0``,  ``0.11.2-0``,  ``0.11.1-0``,  ``0.11.0-1``,  ``0.11.0-0``,  ``0.10.1-0``,  ``0.10.0-1``,  ``0.10.0-0``,  ``0.9.2-0``,  ``0.9.1-0``,  ``0.9.0-0``,  ``0.8.1-1``,  ``0.8.1-0``,  ``0.8.0-0``,  ``0.7.1-1``,  ``0.7.0-1``,  ``0.7.0-0``,  ``0.6.5-0``,  ``0.6.4-0``,  ``0.6.2-0``,  ``0.6.0-0``,  ``0.5.2-0`` .. raw:: html
:depends bcftools: ``>=1.9`` :depends biopython: :depends bzip2: ``>=1.0.8,<2.0a0`` :depends cffi: :depends h5py: :depends htslib: ``>=1.15.1,<1.16.0a0`` :depends intervaltree: ``>=3.0.0`` :depends libgcc-ng: ``>=12`` :depends libzlib: ``>=1.2.12,<1.3.0a0`` :depends mappy: :depends minimap2: ``>=2.17`` :depends numpy: ``<1.20.0`` :depends ont-fast5-api: :depends parasail-python: :depends pysam: ``>=0.16.0.1`` :depends pyspoa: :depends python: ``>=3.8,<3.9.0a0`` :depends python-edlib: :depends python_abi: ``3.8.* *_cp38`` :depends racon: ``>=1.4.13`` :depends requests: :depends samtools: ``>=1.9`` :depends tensorflow: ``2.7.*`` :depends whatshap: ``>=0.18`` :depends xz: ``>=5.2.5,<5.3.0a0`` :requirements: .. rubric:: Installation With an activated Bioconda channel (see :ref:`set-up-channels`), install with:: conda install medaka and update with:: conda update medaka or use the docker container:: docker pull quay.io/biocontainers/medaka: (see `medaka/tags`_ for valid values for ````) .. |downloads_medaka| image:: https://img.shields.io/conda/dn/bioconda/medaka.svg?style=flat :target: https://anaconda.org/bioconda/medaka :alt: (downloads) .. |docker_medaka| image:: https://quay.io/repository/biocontainers/medaka/status :target: https://quay.io/repository/biocontainers/medaka .. _`medaka/tags`: https://quay.io/repository/biocontainers/medaka?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/medaka/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/medaka/README.html