:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'megadepth' .. highlight: bash megadepth ========= .. conda:recipe:: megadepth :replaces_section_title: :noindex: Megadepth is an efficient tool for extracting coverage related information from RNA and DNA\-seq BAM and BigWig files. It supports reading whole\-genome coverage from BAM files and writing either indexed TSV or BigWig files\, as well as efficient region coverage summary over intervals from both types of files. :homepage: https://github.com/ChristopherWilks/megadepth :license: MIT / MIT :recipe: /`megadepth `_/`meta.yaml `_ .. conda:package:: megadepth |downloads_megadepth| |docker_megadepth| :versions: ``1.2.0-1``,  ``1.2.0-0``,  ``1.1.3-1``,  ``1.1.3-0``,  ``1.1.2-0``,  ``1.1.1-0``,  ``1.1.0-1``,  ``1.1.0-0``,  ``1.0.9b-0`` :depends htslib: ``>=1.14,<1.15.0a0`` :depends libbigwig: :depends libgcc-ng: ``>=10.3.0`` :depends libstdcxx-ng: ``>=10.3.0`` :depends libzlib: ``>=1.2.11,<1.3.0a0`` :requirements: .. rubric:: Installation With an activated Bioconda channel (see :ref:`set-up-channels`), install with:: conda install megadepth and update with:: conda update megadepth or use the docker container:: docker pull quay.io/biocontainers/megadepth: (see `megadepth/tags`_ for valid values for ````) .. |downloads_megadepth| image:: https://img.shields.io/conda/dn/bioconda/megadepth.svg?style=flat :target: https://anaconda.org/bioconda/megadepth :alt: (downloads) .. |docker_megadepth| image:: https://quay.io/repository/biocontainers/megadepth/status :target: https://quay.io/repository/biocontainers/megadepth .. _`megadepth/tags`: https://quay.io/repository/biocontainers/megadepth?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/megadepth/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/megadepth/README.html