:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'soapdenovo2' .. highlight: bash soapdenovo2 =========== .. conda:recipe:: soapdenovo2 :replaces_section_title: :noindex: SOAPdenovo is a novel short\-read assembly method that can build a de novo draft assembly for the human\-sized genomes. :homepage: http://soap.genomics.org.cn/soapdenovo.html :license: GPL :recipe: /`soapdenovo2 `_/`meta.yaml `_ .. conda:package:: soapdenovo2 |downloads_soapdenovo2| |docker_soapdenovo2| :versions: ``2.40-2``,  ``2.40-1``,  ``2.40-0`` :depends samtools: ``0.1.19.*`` :depends zlib: ``>=1.2.11,<1.3.0a0`` :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 soapdenovo2 and update with:: mamba update soapdenovo2 To create a new environment, run:: mamba create --name myenvname soapdenovo2 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/soapdenovo2: (see `soapdenovo2/tags`_ for valid values for ````) .. |downloads_soapdenovo2| image:: https://img.shields.io/conda/dn/bioconda/soapdenovo2.svg?style=flat :target: https://anaconda.org/bioconda/soapdenovo2 :alt: (downloads) .. |docker_soapdenovo2| image:: https://quay.io/repository/biocontainers/soapdenovo2/status :target: https://quay.io/repository/biocontainers/soapdenovo2 .. _`soapdenovo2/tags`: https://quay.io/repository/biocontainers/soapdenovo2?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/soapdenovo2/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/soapdenovo2/README.html