:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'igvtools' .. highlight: bash igvtools ======== .. conda:recipe:: igvtools :replaces_section_title: :noindex: Command line tools for IGV :homepage: http://www.broadinstitute.org/igv/ :license: MIT / MIT :recipe: /`igvtools `_/`meta.yaml `_ :links: biotools: :biotools:`IGVtools` .. conda:package:: igvtools |downloads_igvtools| |docker_igvtools| :versions: ``2.16.2-0``,  ``2.14.1-0``,  ``2.5.3-1``,  ``2.5.3-0``,  ``2.3.93-0``,  ``2.3.75-1``,  ``2.3.48-1``,  ``2.3.16-0`` :depends openjdk: ``11.*`` :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 igvtools and update with:: mamba update igvtools To create a new environment, run:: mamba create --name myenvname igvtools 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/igvtools: (see `igvtools/tags`_ for valid values for ````) .. |downloads_igvtools| image:: https://img.shields.io/conda/dn/bioconda/igvtools.svg?style=flat :target: https://anaconda.org/bioconda/igvtools :alt: (downloads) .. |docker_igvtools| image:: https://quay.io/repository/biocontainers/igvtools/status :target: https://quay.io/repository/biocontainers/igvtools .. _`igvtools/tags`: https://quay.io/repository/biocontainers/igvtools?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/igvtools/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/igvtools/README.html