:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'coral' .. highlight: bash coral ===== .. conda:recipe:: coral :replaces_section_title: :noindex: Coral is an efficient tool to bridge paire\-end RNA\-seq reads. :homepage: https://github.com/Shao-Group/coral :license: BSD 3-Clause License :recipe: /`coral `_/`meta.yaml `_ .. conda:package:: coral |downloads_coral| |docker_coral| :versions: ``1.0.0-1``,  ``1.0.0-0`` :depends boost-cpp: ``>=1.70.0,<1.70.1.0a0`` :depends htslib: ``>=1.10.2,<1.20.0a0`` :depends libgcc-ng: ``>=7.5.0`` :depends libstdcxx-ng: ``>=7.5.0`` :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 coral and update with:: mamba update coral To create a new environment, run:: mamba create --name myenvname coral 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/coral: (see `coral/tags`_ for valid values for ````) .. |downloads_coral| image:: https://img.shields.io/conda/dn/bioconda/coral.svg?style=flat :target: https://anaconda.org/bioconda/coral :alt: (downloads) .. |docker_coral| image:: https://quay.io/repository/biocontainers/coral/status :target: https://quay.io/repository/biocontainers/coral .. _`coral/tags`: https://quay.io/repository/biocontainers/coral?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/coral/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/coral/README.html