:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'ribotaper' .. highlight: bash ribotaper ========= .. conda:recipe:: ribotaper :replaces_section_title: :noindex: RiboTaper is a new analysis pipeline for Ribosome Profiling \(Ribo\-seq\) experiments\, which exploits the triplet periodicity of ribosomal footprints to call translated regions. :homepage: https://ohlerlab.mdc-berlin.de/software/RiboTaper_126/ :license: GPL :recipe: /`ribotaper `_/`meta.yaml `_ :links: biotools: :biotools:`ribotaper`, doi: :doi:`10.1038/nmeth.3688` .. conda:package:: ribotaper |downloads_ribotaper| |docker_ribotaper| :versions: ``1.3.1-0``,  ``1.3.1a-6``,  ``1.3.1a-5``,  ``1.3.1a-4``,  ``1.3.1a-3``,  ``1.3.1a-2``,  ``1.3.1a-1``,  ``1.3.1a-0`` :depends bedtools: ``==2.17.0`` :depends r-ade4: :depends r-domc: :depends r-foreach: :depends r-iterators: :depends r-multitaper: :depends r-seqinr: :depends r-xnomial: :depends samtools: :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 ribotaper and update with:: mamba update ribotaper To create a new environment, run:: mamba create --name myenvname ribotaper 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/ribotaper: (see `ribotaper/tags`_ for valid values for ````) .. |downloads_ribotaper| image:: https://img.shields.io/conda/dn/bioconda/ribotaper.svg?style=flat :target: https://anaconda.org/bioconda/ribotaper :alt: (downloads) .. |docker_ribotaper| image:: https://quay.io/repository/biocontainers/ribotaper/status :target: https://quay.io/repository/biocontainers/ribotaper .. _`ribotaper/tags`: https://quay.io/repository/biocontainers/ribotaper?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/ribotaper/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/ribotaper/README.html