:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'peakachu' .. highlight: bash peakachu ======== .. conda:recipe:: peakachu :replaces_section_title: :noindex: Peak calling tool for CLIP\-seq data. :homepage: https://github.com/tbischler/PEAKachu :license: ISCL :recipe: /`peakachu `_/`meta.yaml `_ .. conda:package:: peakachu |downloads_peakachu| |docker_peakachu| :versions: ``0.2.0-3``,  ``0.2.0-2``,  ``0.2.0-1``,  ``0.2.0-0``,  ``0.1.0-5``,  ``0.1.0-4``,  ``0.1.0-3``,  ``0.1.0-1``,  ``0.1.0-0`` :depends bcbio-gff: ``>=0.6.6`` :depends bioconductor-deseq2: ``>=1.18.1`` :depends bioconductor-edger: :depends biopython: ``>=1.77`` :depends blockbuster: :depends libgcc-ng: ``>=12`` :depends matplotlib-base: ``>=3.3.1`` :depends numexpr: ``>=2.7.0`` :depends pandas: ``>=0.25.1`` :depends pysam: ``>=0.16.0.1`` :depends python: ``>=3.8,<3.9.0a0`` :depends python_abi: ``3.8.* *_cp38`` :depends rpy2: :depends statsmodels: ``>=0.10.1`` :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 peakachu and update with:: mamba update peakachu To create a new environment, run:: mamba create --name myenvname peakachu 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/peakachu: (see `peakachu/tags`_ for valid values for ````) .. |downloads_peakachu| image:: https://img.shields.io/conda/dn/bioconda/peakachu.svg?style=flat :target: https://anaconda.org/bioconda/peakachu :alt: (downloads) .. |docker_peakachu| image:: https://quay.io/repository/biocontainers/peakachu/status :target: https://quay.io/repository/biocontainers/peakachu .. _`peakachu/tags`: https://quay.io/repository/biocontainers/peakachu?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/peakachu/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/peakachu/README.html