:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'hmftools-amber' .. highlight: bash hmftools-amber ============== .. conda:recipe:: hmftools-amber :replaces_section_title: :noindex: Generates a tumor BAF file for use in PURPLE. :homepage: https://github.com/hartwigmedical/hmftools/blob/master/amber/README.md :license: GPL3 / GPL-3.0-only :recipe: /`hmftools-amber `_/`meta.yaml `_ .. conda:package:: hmftools-amber |downloads_hmftools-amber| |docker_hmftools-amber| :versions: .. raw:: html
4.0-03.9.1-03.9-13.9-03.5-13.5-03.4-03.3-03.2-0 ``4.0-0``,  ``3.9.1-0``,  ``3.9-1``,  ``3.9-0``,  ``3.5-1``,  ``3.5-0``,  ``3.4-0``,  ``3.3-0``,  ``3.2-0``,  ``2.5-0``,  ``2.3-0``,  ``2.0-0`` .. raw:: html
:depends bioconductor-copynumber: :depends openjdk: ``>=8`` :depends r-dplyr: :depends zlib: :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 hmftools-amber and update with:: mamba update hmftools-amber To create a new environment, run:: mamba create --name myenvname hmftools-amber 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/hmftools-amber: (see `hmftools-amber/tags`_ for valid values for ````) .. |downloads_hmftools-amber| image:: https://img.shields.io/conda/dn/bioconda/hmftools-amber.svg?style=flat :target: https://anaconda.org/bioconda/hmftools-amber :alt: (downloads) .. |docker_hmftools-amber| image:: https://quay.io/repository/biocontainers/hmftools-amber/status :target: https://quay.io/repository/biocontainers/hmftools-amber .. _`hmftools-amber/tags`: https://quay.io/repository/biocontainers/hmftools-amber?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/hmftools-amber/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/hmftools-amber/README.html