:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'clipandmerge' .. highlight: bash clipandmerge ============ .. conda:recipe:: clipandmerge :replaces_section_title: :noindex: Clip\&Merge is a tool to clip off adapters from sequencing reads and merge overlapping paired end reads together. :homepage: https://github.com/apeltzer/ClipAndMerge :license: GPLv3 :recipe: /`clipandmerge `_/`meta.yaml `_ .. conda:package:: clipandmerge |downloads_clipandmerge| |docker_clipandmerge| :versions: ``1.7.8-2``,  ``1.7.8-1``,  ``1.7.8-0`` :depends openjdk: :depends python: :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 clipandmerge and update with:: mamba update clipandmerge To create a new environment, run:: mamba create --name myenvname clipandmerge 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/clipandmerge: (see `clipandmerge/tags`_ for valid values for ````) .. |downloads_clipandmerge| image:: https://img.shields.io/conda/dn/bioconda/clipandmerge.svg?style=flat :target: https://anaconda.org/bioconda/clipandmerge :alt: (downloads) .. |docker_clipandmerge| image:: https://quay.io/repository/biocontainers/clipandmerge/status :target: https://quay.io/repository/biocontainers/clipandmerge .. _`clipandmerge/tags`: https://quay.io/repository/biocontainers/clipandmerge?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/clipandmerge/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/clipandmerge/README.html