:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'meta-sparse' .. highlight: bash meta-sparse =========== .. conda:recipe:: meta-sparse :replaces_section_title: :noindex: SPARSE indexes reference genomes in public databases into hierarchical clusters and uses it to predict origins of metagenomic reads. :homepage: https://github.com/zheminzhou/SPARSE/ :license: GPL3 / GNU General Public License v3 (GPLv3) :recipe: /`meta-sparse `_/`meta.yaml `_ .. conda:package:: meta-sparse |downloads_meta-sparse| |docker_meta-sparse| :versions: ``0.1.12-4``,  ``0.1.12-3``,  ``0.1.12-2``,  ``0.1.12-1``,  ``0.1.12-0``,  ``0.1.11-0``,  ``0.1.2-2``,  ``0.1.2-1``,  ``0.1.2-0`` :depends bowtie2: :depends libgcc-ng: ``>=10.3.0`` :depends mash: :depends msgpack-python: :depends numpy: :depends pandas: :depends pycapnp: :depends python: ``>=2.7,<2.8.0a0`` :depends python_abi: ``2.7.* *_cp27mu`` :depends samtools: :depends scipy: :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 meta-sparse and update with:: mamba update meta-sparse To create a new environment, run:: mamba create --name myenvname meta-sparse 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/meta-sparse: (see `meta-sparse/tags`_ for valid values for ````) .. |downloads_meta-sparse| image:: https://img.shields.io/conda/dn/bioconda/meta-sparse.svg?style=flat :target: https://anaconda.org/bioconda/meta-sparse :alt: (downloads) .. |docker_meta-sparse| image:: https://quay.io/repository/biocontainers/meta-sparse/status :target: https://quay.io/repository/biocontainers/meta-sparse .. _`meta-sparse/tags`: https://quay.io/repository/biocontainers/meta-sparse?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/meta-sparse/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/meta-sparse/README.html