:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'mosdepth' .. highlight: bash mosdepth ======== .. conda:recipe:: mosdepth :replaces_section_title: :noindex: Fast BAM\/CRAM depth calculation for WGS\, exome\, or targeted sequencing. :homepage: https://github.com/brentp/mosdepth :license: MIT :recipe: /`mosdepth `_/`meta.yaml `_ :links: doi: :doi:`10.1093/bioinformatics/btx699`, biotools: :biotools:`mosdepth` .. conda:package:: mosdepth |downloads_mosdepth| |docker_mosdepth| :versions: .. raw:: html
0.3.7-00.3.6-00.3.5-00.3.4-00.3.3-30.3.3-20.3.3-10.3.3-00.3.2-1 ``0.3.7-0``,  ``0.3.6-0``,  ``0.3.5-0``,  ``0.3.4-0``,  ``0.3.3-3``,  ``0.3.3-2``,  ``0.3.3-1``,  ``0.3.3-0``,  ``0.3.2-1``,  ``0.3.2-0``,  ``0.3.1-2``,  ``0.3.1-1``,  ``0.3.1-0``,  ``0.2.9-1``,  ``0.2.9-0``,  ``0.2.7-0``,  ``0.2.6-0``,  ``0.2.5-0``,  ``0.2.4-0``,  ``0.2.3-1``,  ``0.2.3-0``,  ``0.2.2-1``,  ``0.2.1-1``,  ``0.2.1-0``,  ``0.2.0-0``,  ``0.1.9-0``,  ``0.1.7-0``,  ``0.1.6-0``,  ``0.1.5-0``,  ``0.1.4a-0``,  ``0.1.3-0``,  ``0.1.1-0`` .. raw:: html
:depends htslib: ``>=1.19.1,<1.20.0a0`` :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 mosdepth and update with:: mamba update mosdepth To create a new environment, run:: mamba create --name myenvname mosdepth 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/mosdepth: (see `mosdepth/tags`_ for valid values for ````) .. |downloads_mosdepth| image:: https://img.shields.io/conda/dn/bioconda/mosdepth.svg?style=flat :target: https://anaconda.org/bioconda/mosdepth :alt: (downloads) .. |docker_mosdepth| image:: https://quay.io/repository/biocontainers/mosdepth/status :target: https://quay.io/repository/biocontainers/mosdepth .. _`mosdepth/tags`: https://quay.io/repository/biocontainers/mosdepth?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/mosdepth/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/mosdepth/README.html