:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'cycle_finder' .. highlight: bash cycle_finder ============ .. conda:recipe:: cycle_finder :replaces_section_title: :noindex: A de novo analysis tool for tandem and interspersed repeats based on cycle\-finding :homepage: https://github.com/rkajitani/cycle_finder :license: GPL / GPL-3.0 :recipe: /`cycle_finder `_/`meta.yaml `_ .. conda:package:: cycle_finder |downloads_cycle_finder| |docker_cycle_finder| :versions: ``1.0.0-0`` :depends _openmp_mutex: ``>=4.5`` :depends blast: :depends bzip2: :depends cd-hit: :depends gzip: :depends jellyfish: :depends libgcc-ng: ``>=12`` :depends libstdcxx-ng: ``>=12`` :depends openmp: :depends trf: :depends zlib: :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 cycle_finder and update with:: mamba update cycle_finder To create a new environment, run:: mamba create --name myenvname cycle_finder 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/cycle_finder: (see `cycle_finder/tags`_ for valid values for ````) .. |downloads_cycle_finder| image:: https://img.shields.io/conda/dn/bioconda/cycle_finder.svg?style=flat :target: https://anaconda.org/bioconda/cycle_finder :alt: (downloads) .. |docker_cycle_finder| image:: https://quay.io/repository/biocontainers/cycle_finder/status :target: https://quay.io/repository/biocontainers/cycle_finder .. _`cycle_finder/tags`: https://quay.io/repository/biocontainers/cycle_finder?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/cycle_finder/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/cycle_finder/README.html