:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'spliceai' .. highlight: bash spliceai ======== .. conda:recipe:: spliceai :replaces_section_title: :noindex: A deep learning\-based tool to identify splice variants. :homepage: https://github.com/Illumina/SpliceAI :license: GPL / GPLv3 :recipe: /`spliceai `_/`meta.yaml `_ .. conda:package:: spliceai |downloads_spliceai| |docker_spliceai| :versions: ``1.3.1-1``,  ``1.3.1-0``,  ``1.3-1``,  ``1.3-0``,  ``1.2.1-1``,  ``1.2.1-0`` :depends keras: ``>=2.0.5`` :depends numpy: ``>=1.14.0`` :depends pandas: ``>=0.24.2`` :depends pyfaidx: ``>=0.5.0`` :depends pysam: ``>=0.10.0`` :depends python: :depends tensorflow: ``>=1.13.0`` :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 spliceai and update with:: mamba update spliceai To create a new environment, run:: mamba create --name myenvname spliceai 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/spliceai: (see `spliceai/tags`_ for valid values for ````) .. |downloads_spliceai| image:: https://img.shields.io/conda/dn/bioconda/spliceai.svg?style=flat :target: https://anaconda.org/bioconda/spliceai :alt: (downloads) .. |docker_spliceai| image:: https://quay.io/repository/biocontainers/spliceai/status :target: https://quay.io/repository/biocontainers/spliceai .. _`spliceai/tags`: https://quay.io/repository/biocontainers/spliceai?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/spliceai/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/spliceai/README.html