:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-bsgenome' .. highlight: bash bioconductor-bsgenome ===================== .. conda:recipe:: bioconductor-bsgenome :replaces_section_title: :noindex: Software infrastructure for efficient representation of full genomes and their SNPs :homepage: https://bioconductor.org/packages/3.18/bioc/html/BSgenome.html :license: Artistic-2.0 :recipe: /`bioconductor-bsgenome `_/`meta.yaml `_ :links: biotools: :biotools:`bsgenome`, doi: :doi:`10.1038/nmeth.3252` Infrastructure shared by all the Biostrings\-based genome data packages. .. conda:package:: bioconductor-bsgenome |downloads_bioconductor-bsgenome| |docker_bioconductor-bsgenome| :versions: .. raw:: html
1.70.1-01.68.0-01.66.3-01.66.1-01.62.0-01.60.0-01.58.0-11.58.0-01.56.0-0 ``1.70.1-0``,  ``1.68.0-0``,  ``1.66.3-0``,  ``1.66.1-0``,  ``1.62.0-0``,  ``1.60.0-0``,  ``1.58.0-1``,  ``1.58.0-0``,  ``1.56.0-0``,  ``1.54.0-0``,  ``1.52.0-1``,  ``1.52.0-0``,  ``1.50.0-0``,  ``1.48.0-0``,  ``1.46.0-0``,  ``1.44.2-0``,  ``1.42.0-0``,  ``1.40.1-0``,  ``1.38.0-0`` .. raw:: html
:depends bioconductor-biocgenerics: ``>=0.48.0,<0.49.0`` :depends bioconductor-biocio: ``>=1.12.0,<1.13.0`` :depends bioconductor-biostrings: ``>=2.70.0,<2.71.0`` :depends bioconductor-genomeinfodb: ``>=1.38.0,<1.39.0`` :depends bioconductor-genomicranges: ``>=1.54.0,<1.55.0`` :depends bioconductor-iranges: ``>=2.36.0,<2.37.0`` :depends bioconductor-rsamtools: ``>=2.18.0,<2.19.0`` :depends bioconductor-rtracklayer: ``>=1.62.0,<1.63.0`` :depends bioconductor-s4vectors: ``>=0.40.0,<0.41.0`` :depends bioconductor-xvector: ``>=0.42.0,<0.43.0`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-matrixstats: :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-bsgenome and update with:: mamba update bioconductor-bsgenome To create a new environment, run:: mamba create --name myenvname bioconductor-bsgenome 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-bsgenome: (see `bioconductor-bsgenome/tags`_ for valid values for ````) .. |downloads_bioconductor-bsgenome| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-bsgenome.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-bsgenome :alt: (downloads) .. |docker_bioconductor-bsgenome| image:: https://quay.io/repository/biocontainers/bioconductor-bsgenome/status :target: https://quay.io/repository/biocontainers/bioconductor-bsgenome .. _`bioconductor-bsgenome/tags`: https://quay.io/repository/biocontainers/bioconductor-bsgenome?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-bsgenome/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-bsgenome/README.html