:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'knock-knock' .. highlight: bash knock-knock =========== .. conda:recipe:: knock-knock :replaces_section_title: :noindex: toolkit for analyzing CRISPR knock\-in experiments :homepage: https://github.com/jeffhussmann/knock-knock :license: GPL3 / GPL-3.0-or-later :recipe: /`knock-knock `_/`meta.yaml `_ .. conda:package:: knock-knock |downloads_knock-knock| |docker_knock-knock| :versions: ``0.4.2-0``,  ``0.2.1-0`` :depends biopython: ``>=1.80`` :depends blast: ``>=2.7.1`` :depends bokeh: ``>=2.4.2`` :depends h5py: ``>=3.1.0`` :depends hits: ``>=0.4.0`` :depends ipywidgets: ``>=7.1.2`` :depends matplotlib-base: ``>=2.1.2`` :depends minimap2: ``2.16`` :depends nbconvert: ``>=6.0.7`` :depends nbformat: ``>=4.4.0`` :depends numpy: ``>=1.14.2`` :depends pandas: ``>=0.22.0`` :depends parallel: ``>=20190522`` :depends pillow: ``>=5.0.0`` :depends pysam: ``>=0.14`` :depends python: ``>=3.7`` :depends pyyaml: ``>=3.12`` :depends samtools: ``>=1.9`` :depends star: ``>=2.7.1`` :depends tqdm: ``>=4.31.1`` :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 knock-knock and update with:: mamba update knock-knock To create a new environment, run:: mamba create --name myenvname knock-knock 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/knock-knock: (see `knock-knock/tags`_ for valid values for ````) .. |downloads_knock-knock| image:: https://img.shields.io/conda/dn/bioconda/knock-knock.svg?style=flat :target: https://anaconda.org/bioconda/knock-knock :alt: (downloads) .. |docker_knock-knock| image:: https://quay.io/repository/biocontainers/knock-knock/status :target: https://quay.io/repository/biocontainers/knock-knock .. _`knock-knock/tags`: https://quay.io/repository/biocontainers/knock-knock?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/knock-knock/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/knock-knock/README.html