:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-somaticsignatures' .. highlight: bash bioconductor-somaticsignatures ============================== .. conda:recipe:: bioconductor-somaticsignatures :replaces_section_title: :noindex: Somatic Signatures :homepage: https://bioconductor.org/packages/3.18/bioc/html/SomaticSignatures.html :license: MIT + file LICENSE :recipe: /`bioconductor-somaticsignatures `_/`meta.yaml `_ :links: biotools: :biotools:`somaticsignatures` The SomaticSignatures package identifies mutational signatures of single nucleotide variants \(SNVs\). It provides a infrastructure related to the methodology described in Nik\-Zainal \(2012\, Cell\)\, with flexibility in the matrix decomposition algorithms. .. conda:package:: bioconductor-somaticsignatures |downloads_bioconductor-somaticsignatures| |docker_bioconductor-somaticsignatures| :versions: .. raw:: html
2.38.0-02.36.0-02.34.0-02.30.0-02.28.0-02.26.0-12.26.0-02.24.0-02.22.0-0 ``2.38.0-0``,  ``2.36.0-0``,  ``2.34.0-0``,  ``2.30.0-0``,  ``2.28.0-0``,  ``2.26.0-1``,  ``2.26.0-0``,  ``2.24.0-0``,  ``2.22.0-0``,  ``2.20.0-1``,  ``2.18.0-0``,  ``2.16.0-0``,  ``2.14.0-0``,  ``2.12.1-0`` .. raw:: html
:depends bioconductor-biobase: ``>=2.62.0,<2.63.0`` :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-ggbio: ``>=1.50.0,<1.51.0`` :depends bioconductor-iranges: ``>=2.36.0,<2.37.0`` :depends bioconductor-pcamethods: ``>=1.94.0,<1.95.0`` :depends bioconductor-s4vectors: ``>=0.40.0,<0.41.0`` :depends bioconductor-variantannotation: ``>=1.48.0,<1.49.0`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-ggplot2: :depends r-nmf: :depends r-proxy: :depends r-reshape2: :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-somaticsignatures and update with:: mamba update bioconductor-somaticsignatures To create a new environment, run:: mamba create --name myenvname bioconductor-somaticsignatures 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-somaticsignatures: (see `bioconductor-somaticsignatures/tags`_ for valid values for ````) .. |downloads_bioconductor-somaticsignatures| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-somaticsignatures.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-somaticsignatures :alt: (downloads) .. |docker_bioconductor-somaticsignatures| image:: https://quay.io/repository/biocontainers/bioconductor-somaticsignatures/status :target: https://quay.io/repository/biocontainers/bioconductor-somaticsignatures .. _`bioconductor-somaticsignatures/tags`: https://quay.io/repository/biocontainers/bioconductor-somaticsignatures?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-somaticsignatures/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-somaticsignatures/README.html