:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'ddocent' .. highlight: bash ddocent ======= .. conda:recipe:: ddocent :replaces_section_title: :noindex: dDocent is an interactive bash wrapper to QC\, assemble\, map\, and call SNPs from all types of RAD data :homepage: http://ddocent.com :license: The MIT License (MIT) :recipe: /`ddocent `_/`meta.yaml `_ .. conda:package:: ddocent |downloads_ddocent| |docker_ddocent| :versions: .. raw:: html
2.9.4-12.9.4-02.8.13-32.8.13-22.8.13-12.8.13-02.8.12-02.7.8-42.7.8-3 ``2.9.4-1``,  ``2.9.4-0``,  ``2.8.13-3``,  ``2.8.13-2``,  ``2.8.13-1``,  ``2.8.13-0``,  ``2.8.12-0``,  ``2.7.8-4``,  ``2.7.8-3``,  ``2.7.8-2``,  ``2.7.8-1``,  ``2.7.8-0``,  ``2.7.7-0``,  ``2.7.6-0``,  ``2.6.0-2``,  ``2.6.0-1``,  ``2.6.0-0``,  ``2.5.6-0``,  ``2.5.5-0``,  ``2.5.2-1``,  ``2.5.2-0``,  ``2.5.1-0``,  ``2.3.8-0``,  ``2.2.25-2``,  ``2.2.25-1``,  ``2.2.25-0``,  ``2.2.20-0``,  ``2.2.19-0``,  ``2.2.16-0``,  ``2.2.15-0``,  ``2.2.13-0``,  ``2.2.8-0``,  ``2.2.7-0``,  ``2.2.4-0``,  ``2.1-0`` .. raw:: html
:depends bedops: :depends bedtools: ``>=2.26.0`` :depends bwa: ``>=0.7.13`` :depends cd-hit: :depends coreutils: ``>=8.22`` :depends curl: :depends fastp: ``>=0.20.0`` :depends freebayes: ``>=1`` :depends gnuplot: :depends grep: :depends mawk: :depends parallel: :depends pear: :depends rainbow: :depends samtools: ``>=1.6`` :depends sed: :depends seqtk: ``>=1.3`` :depends unzip: :depends vcflib: ``>=0.1.11`` :depends vcftools: ``>=0.1.15`` :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 ddocent and update with:: mamba update ddocent To create a new environment, run:: mamba create --name myenvname ddocent 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/ddocent: (see `ddocent/tags`_ for valid values for ````) .. |downloads_ddocent| image:: https://img.shields.io/conda/dn/bioconda/ddocent.svg?style=flat :target: https://anaconda.org/bioconda/ddocent :alt: (downloads) .. |docker_ddocent| image:: https://quay.io/repository/biocontainers/ddocent/status :target: https://quay.io/repository/biocontainers/ddocent .. _`ddocent/tags`: https://quay.io/repository/biocontainers/ddocent?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/ddocent/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/ddocent/README.html