:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'perl-sanger-cgp-vagrent' .. highlight: bash perl-sanger-cgp-vagrent ======================= .. conda:recipe:: perl-sanger-cgp-vagrent :replaces_section_title: :noindex: A toolset for comparing genomic variants to reference genome annotation to identify potential biological consequences. :homepage: https://github.com/cancerit/VAGrENT :license: GPL / GPL3 :recipe: /`perl-sanger-cgp-vagrent `_/`meta.yaml `_ .. conda:package:: perl-sanger-cgp-vagrent |downloads_perl-sanger-cgp-vagrent| |docker_perl-sanger-cgp-vagrent| :versions: .. raw:: html
3.7.0-23.7.0-13.7.0-03.6.1-03.5.2-03.5.0-13.5.0-03.3.3-03.2.0-1 ``3.7.0-2``,  ``3.7.0-1``,  ``3.7.0-0``,  ``3.6.1-0``,  ``3.5.2-0``,  ``3.5.0-1``,  ``3.5.0-0``,  ``3.3.3-0``,  ``3.2.0-1``,  ``3.2.0-0`` .. raw:: html
:depends libgcc-ng: ``>=12`` :depends perl: ``>=5.32.1,<5.33.0a0 *_perl5`` :depends perl-bio-db-hts: :depends perl-bioperl: :depends perl-module-build: ``0.4234.*`` :depends perl-set-intervaltree: :depends perl-sub-exporter-progressive: ``0.001013.*`` :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 perl-sanger-cgp-vagrent and update with:: mamba update perl-sanger-cgp-vagrent To create a new environment, run:: mamba create --name myenvname perl-sanger-cgp-vagrent 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/perl-sanger-cgp-vagrent: (see `perl-sanger-cgp-vagrent/tags`_ for valid values for ````) .. |downloads_perl-sanger-cgp-vagrent| image:: https://img.shields.io/conda/dn/bioconda/perl-sanger-cgp-vagrent.svg?style=flat :target: https://anaconda.org/bioconda/perl-sanger-cgp-vagrent :alt: (downloads) .. |docker_perl-sanger-cgp-vagrent| image:: https://quay.io/repository/biocontainers/perl-sanger-cgp-vagrent/status :target: https://quay.io/repository/biocontainers/perl-sanger-cgp-vagrent .. _`perl-sanger-cgp-vagrent/tags`: https://quay.io/repository/biocontainers/perl-sanger-cgp-vagrent?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/perl-sanger-cgp-vagrent/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/perl-sanger-cgp-vagrent/README.html