:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-excluderanges' .. highlight: bash bioconductor-excluderanges ========================== .. conda:recipe:: bioconductor-excluderanges :replaces_section_title: :noindex: Genomic coordinates of problematic genomic regions :homepage: https://bioconductor.org/packages/3.18/data/annotation/html/excluderanges.html :license: MIT + file LICENSE :recipe: /`bioconductor-excluderanges `_/`meta.yaml `_ Genomic coordinates of problematic genomic regions that should be avoided when working with genomic data. GRanges of exclusion regions \(formerly known as blacklisted\)\, centromeres\, telomeres\, known heterochromatin regions\, etc. \(UCSC \'gap\' table data\). Primarily for human and mouse genomes\, hg19\/hg38 and mm9\/mm10 genome assemblies. .. conda:package:: bioconductor-excluderanges |downloads_bioconductor-excluderanges| |docker_bioconductor-excluderanges| :versions: ``0.99.8-1``,  ``0.99.8-0``,  ``0.99.6-2``,  ``0.99.6-1``,  ``0.99.6-0`` :depends bioconductor-data-packages: ``>=20231203`` :depends bioconductor-genomicranges: ``>=1.54.0,<1.55.0`` :depends curl: :depends r-base: ``>=4.3,<4.4.0a0`` :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 bioconductor-excluderanges and update with:: mamba update bioconductor-excluderanges To create a new environment, run:: mamba create --name myenvname bioconductor-excluderanges 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/bioconductor-excluderanges: (see `bioconductor-excluderanges/tags`_ for valid values for ````) .. |downloads_bioconductor-excluderanges| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-excluderanges.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-excluderanges :alt: (downloads) .. |docker_bioconductor-excluderanges| image:: https://quay.io/repository/biocontainers/bioconductor-excluderanges/status :target: https://quay.io/repository/biocontainers/bioconductor-excluderanges .. _`bioconductor-excluderanges/tags`: https://quay.io/repository/biocontainers/bioconductor-excluderanges?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/bioconductor-excluderanges/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/bioconductor-excluderanges/README.html