:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'ribominer' .. highlight: bash ribominer ========= .. conda:recipe:: ribominer :replaces_section_title: :noindex: A python toolset for mining multi\-dimensional features of the translatome with ribosome profiling data :homepage: https://github.com/xryanglab/RiboMiner :license: GPL3 / GPLv3.0 :recipe: /`ribominer `_/`meta.yaml `_ .. conda:package:: ribominer |downloads_ribominer| |docker_ribominer| :versions: ``0.2.3.2-0``,  ``0.2.3.1-0`` :depends biopython: ``>=1.70`` :depends htseq: :depends matplotlib-base: :depends numpy: ``>=1.16.4`` :depends pandas: ``>=0.24.2`` :depends pysam: ``>=0.15.2`` :depends pysamstats: :depends python: :depends ribocode: ``>=1.2.10`` :depends scipy: ``>=1.1.0`` :depends seaborn: ``>=0.8.1`` :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 ribominer and update with:: mamba update ribominer To create a new environment, run:: mamba create --name myenvname ribominer 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/ribominer: (see `ribominer/tags`_ for valid values for ````) .. |downloads_ribominer| image:: https://img.shields.io/conda/dn/bioconda/ribominer.svg?style=flat :target: https://anaconda.org/bioconda/ribominer :alt: (downloads) .. |docker_ribominer| image:: https://quay.io/repository/biocontainers/ribominer/status :target: https://quay.io/repository/biocontainers/ribominer .. _`ribominer/tags`: https://quay.io/repository/biocontainers/ribominer?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/ribominer/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/ribominer/README.html