:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'atlas-metadata-validator' .. highlight: bash atlas-metadata-validator ======================== .. conda:recipe:: atlas-metadata-validator :replaces_section_title: :noindex: A MAGE\-TAB validator for Expression Atlas and Single Cell Expression Atlas :homepage: https://github.com/ebi-gene-expression-group/atlas-metadata-validator :license: APACHE / Apache Software :recipe: /`atlas-metadata-validator `_/`meta.yaml `_ This is a python module to parse a set of MAGE\-TAB files and check for compatibility with the Expression Atlas and Single Cell Expression Atlas analysis pipelines. The main validation script automatically detects the experiment type from the MAGE\-TAB and runs the respective tests. Currently general checks \(for bulk and single\-cell experiment\) as well as Single Cell Expression Atlas specific checks are supported. .. conda:package:: atlas-metadata-validator |downloads_atlas-metadata-validator| |docker_atlas-metadata-validator| :versions: .. raw:: html
1.6.1-01.6.0-01.5.0-01.4.1-01.4.0-01.3.0-01.2.1-01.2.0-01.1.0-0 ``1.6.1-0``,  ``1.6.0-0``,  ``1.5.0-0``,  ``1.4.1-0``,  ``1.4.0-0``,  ``1.3.0-0``,  ``1.2.1-0``,  ``1.2.0-0``,  ``1.1.0-0``,  ``1.0.0-0`` .. raw:: html
:depends gitpython: ``>=3.1.7`` :depends python: ``>=3`` :depends requests: ``>=2.20.1`` :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 atlas-metadata-validator and update with:: mamba update atlas-metadata-validator To create a new environment, run:: mamba create --name myenvname atlas-metadata-validator 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/atlas-metadata-validator: (see `atlas-metadata-validator/tags`_ for valid values for ````) .. |downloads_atlas-metadata-validator| image:: https://img.shields.io/conda/dn/bioconda/atlas-metadata-validator.svg?style=flat :target: https://anaconda.org/bioconda/atlas-metadata-validator :alt: (downloads) .. |docker_atlas-metadata-validator| image:: https://quay.io/repository/biocontainers/atlas-metadata-validator/status :target: https://quay.io/repository/biocontainers/atlas-metadata-validator .. _`atlas-metadata-validator/tags`: https://quay.io/repository/biocontainers/atlas-metadata-validator?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/atlas-metadata-validator/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/atlas-metadata-validator/README.html