:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-eupathdb' .. highlight: bash bioconductor-eupathdb ===================== .. conda:recipe:: bioconductor-eupathdb :replaces_section_title: :noindex: Provides access to pathogen annotation resources available on EuPathDB databases :homepage: https://bioconductor.org/packages/3.18/data/annotation/html/EuPathDB.html :license: Artistic-2.0 :recipe: /`bioconductor-eupathdb `_/`meta.yaml `_ Brings together annotation resources from the various EuPathDB databases \(PlasmoDB\, ToxoDB\, TriTrypDB\, etc.\) and makes them available in R using the AnnotationHub framework. .. conda:package:: bioconductor-eupathdb |downloads_bioconductor-eupathdb| |docker_bioconductor-eupathdb| :versions: .. raw:: html
1.0.1-121.0.1-111.0.1-101.0.1-91.0.1-81.0.1-71.0.1-61.0.1-51.0.1-4 ``1.0.1-12``,  ``1.0.1-11``,  ``1.0.1-10``,  ``1.0.1-9``,  ``1.0.1-8``,  ``1.0.1-7``,  ``1.0.1-6``,  ``1.0.1-5``,  ``1.0.1-4``,  ``1.0.1-3``,  ``1.0.1-2``,  ``1.0.1-0`` .. raw:: html
:depends bioconductor-annotationhub: ``>=3.10.0,<3.11.0`` :depends bioconductor-annotationhubdata: ``>=1.32.0,<1.33.0`` :depends bioconductor-biobase: ``>=2.62.0,<2.63.0`` :depends bioconductor-biostrings: ``>=2.70.0,<2.71.0`` :depends bioconductor-data-packages: ``>=20231203`` :depends bioconductor-genomeinfodbdata: ``>=1.2.0,<1.3.0`` :depends bioconductor-genomicranges: ``>=1.54.0,<1.55.0`` :depends curl: :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-biocmanager: :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-eupathdb and update with:: mamba update bioconductor-eupathdb To create a new environment, run:: mamba create --name myenvname bioconductor-eupathdb 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-eupathdb: (see `bioconductor-eupathdb/tags`_ for valid values for ````) .. |downloads_bioconductor-eupathdb| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-eupathdb.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-eupathdb :alt: (downloads) .. |docker_bioconductor-eupathdb| image:: https://quay.io/repository/biocontainers/bioconductor-eupathdb/status :target: https://quay.io/repository/biocontainers/bioconductor-eupathdb .. _`bioconductor-eupathdb/tags`: https://quay.io/repository/biocontainers/bioconductor-eupathdb?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-eupathdb/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-eupathdb/README.html