:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'duphold' .. highlight: bash duphold ======= .. conda:recipe:: duphold :replaces_section_title: :noindex: SV callers like lumpy look at split\-reads and pair distances to find structural variants. This tool is a fast way to add depth information to those calls. :homepage: https://github.com/brentp/duphold :license: MIT :recipe: /`duphold `_/`meta.yaml `_ .. conda:package:: duphold |downloads_duphold| |docker_duphold| :versions: .. raw:: html
0.2.1-40.2.1-30.2.1-20.2.1-10.2.1-00.2.0-00.1.4-00.1.3-00.1.2-0 ``0.2.1-4``,  ``0.2.1-3``,  ``0.2.1-2``,  ``0.2.1-1``,  ``0.2.1-0``,  ``0.2.0-0``,  ``0.1.4-0``,  ``0.1.3-0``,  ``0.1.2-0``,  ``0.1.1-0``,  ``0.1.0-0``,  ``0.0.9-0``,  ``0.0.6-0``,  ``0.0.3-0``,  ``0.0.2-0`` .. raw:: html
:depends htslib: ``>=1.9,<1.10.0a0`` :depends libgcc-ng: ``>=12`` :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 duphold and update with:: mamba update duphold To create a new environment, run:: mamba create --name myenvname duphold 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/duphold: (see `duphold/tags`_ for valid values for ````) .. |downloads_duphold| image:: https://img.shields.io/conda/dn/bioconda/duphold.svg?style=flat :target: https://anaconda.org/bioconda/duphold :alt: (downloads) .. |docker_duphold| image:: https://quay.io/repository/biocontainers/duphold/status :target: https://quay.io/repository/biocontainers/duphold .. _`duphold/tags`: https://quay.io/repository/biocontainers/duphold?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/duphold/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/duphold/README.html