:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-genomicsupersignature' .. highlight: bash bioconductor-genomicsupersignature ================================== .. conda:recipe:: bioconductor-genomicsupersignature :replaces_section_title: :noindex: Interpretation of RNA\-seq experiments through robust\, efficient comparison to public databases :homepage: https://bioconductor.org/packages/3.18/bioc/html/GenomicSuperSignature.html :license: Artistic-2.0 :recipe: /`bioconductor-genomicsupersignature `_/`meta.yaml `_ This package provides a novel method for interpreting new transcriptomic datasets through near\-instantaneous comparison to public archives without high\-performance computing requirements. Through the pre\-computed index\, users can identify public resources associated with their dataset such as gene sets\, MeSH term\, and publication. Functions to identify interpretable annotations and intuitive visualization options are implemented in this package. .. conda:package:: bioconductor-genomicsupersignature |downloads_bioconductor-genomicsupersignature| |docker_bioconductor-genomicsupersignature| :versions: ``1.10.0-0``,  ``1.8.0-0``,  ``1.6.0-0``,  ``1.2.0-0``,  ``1.0.1-0`` :depends bioconductor-biobase: ``>=2.62.0,<2.63.0`` :depends bioconductor-biocfilecache: ``>=2.10.0,<2.11.0`` :depends bioconductor-complexheatmap: ``>=2.18.0,<2.19.0`` :depends bioconductor-s4vectors: ``>=0.40.0,<0.41.0`` :depends bioconductor-summarizedexperiment: ``>=1.32.0,<1.33.0`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-dplyr: :depends r-flextable: :depends r-ggplot2: :depends r-ggpubr: :depends r-irlba: :depends r-plotly: :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-genomicsupersignature and update with:: mamba update bioconductor-genomicsupersignature To create a new environment, run:: mamba create --name myenvname bioconductor-genomicsupersignature 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-genomicsupersignature: (see `bioconductor-genomicsupersignature/tags`_ for valid values for ````) .. |downloads_bioconductor-genomicsupersignature| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-genomicsupersignature.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-genomicsupersignature :alt: (downloads) .. |docker_bioconductor-genomicsupersignature| image:: https://quay.io/repository/biocontainers/bioconductor-genomicsupersignature/status :target: https://quay.io/repository/biocontainers/bioconductor-genomicsupersignature .. _`bioconductor-genomicsupersignature/tags`: https://quay.io/repository/biocontainers/bioconductor-genomicsupersignature?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-genomicsupersignature/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-genomicsupersignature/README.html