:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-signer' .. highlight: bash bioconductor-signer =================== .. conda:recipe:: bioconductor-signer :replaces_section_title: :noindex: Empirical Bayesian approach to mutational signature discovery :homepage: https://bioconductor.org/packages/3.18/bioc/html/signeR.html :license: GPL-3 :recipe: /`bioconductor-signer `_/`meta.yaml `_ :links: biotools: :biotools:`signer` The signeR package provides an empirical Bayesian approach to mutational signature discovery. It is designed to analyze single nucleotide variation \(SNV\) counts in cancer genomes\, but can also be applied to other features as well. Functionalities to characterize signatures or genome samples according to exposure patterns are also provided. .. conda:package:: bioconductor-signer |downloads_bioconductor-signer| |docker_bioconductor-signer| :versions: .. raw:: html
2.4.0-02.2.1-02.0.0-12.0.0-01.20.0-21.20.0-11.20.0-01.18.0-01.16.0-1 ``2.4.0-0``,  ``2.2.1-0``,  ``2.0.0-1``,  ``2.0.0-0``,  ``1.20.0-2``,  ``1.20.0-1``,  ``1.20.0-0``,  ``1.18.0-0``,  ``1.16.0-1``,  ``1.16.0-0``,  ``1.14.0-0``,  ``1.12.0-0``,  ``1.10.0-1``,  ``1.8.0-0``,  ``1.6.1-0``,  ``1.4.0-0``,  ``1.2.2-0``,  ``1.0.1-0`` .. raw:: html
:depends bioconductor-biocfilecache: ``>=2.10.0,<2.11.0`` :depends bioconductor-biocfilecache: ``>=2.10.1,<2.11.0a0`` :depends bioconductor-biocgenerics: ``>=0.48.0,<0.49.0`` :depends bioconductor-biocgenerics: ``>=0.48.1,<0.49.0a0`` :depends bioconductor-biostrings: ``>=2.70.0,<2.71.0`` :depends bioconductor-biostrings: ``>=2.70.1,<2.71.0a0`` :depends bioconductor-bsgenome: ``>=1.70.0,<1.71.0`` :depends bioconductor-bsgenome: ``>=1.70.1,<1.71.0a0`` :depends bioconductor-genomeinfodb: ``>=1.38.0,<1.39.0`` :depends bioconductor-genomeinfodb: ``>=1.38.1,<1.39.0a0`` :depends bioconductor-genomicranges: ``>=1.54.0,<1.55.0`` :depends bioconductor-genomicranges: ``>=1.54.1,<1.55.0a0`` :depends bioconductor-iranges: ``>=2.36.0,<2.37.0`` :depends bioconductor-iranges: ``>=2.36.0,<2.37.0a0`` :depends bioconductor-rtracklayer: ``>=1.62.0,<1.63.0`` :depends bioconductor-rtracklayer: ``>=1.62.0,<1.63.0a0`` :depends bioconductor-variantannotation: ``>=1.48.0,<1.49.0`` :depends bioconductor-variantannotation: ``>=1.48.1,<1.49.0a0`` :depends libblas: ``>=3.9.0,<4.0a0`` :depends libgcc-ng: ``>=12`` :depends liblapack: ``>=3.9.0,<4.0a0`` :depends libstdcxx-ng: ``>=12`` :depends r-ada: :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-bsplus: :depends r-class: :depends r-clue: :depends r-cowplot: :depends r-dplyr: :depends r-dt: :depends r-e1071: :depends r-future: :depends r-future.apply: :depends r-ggplot2: :depends r-ggpubr: :depends r-glmnet: :depends r-kknn: :depends r-listenv: :depends r-magrittr: :depends r-mass: :depends r-maxstat: :depends r-nloptr: :depends r-nmf: :depends r-pheatmap: :depends r-pmcmrplus: :depends r-ppclust: :depends r-proc: :depends r-proxy: :depends r-pvclust: :depends r-randomforest: :depends r-rcolorbrewer: :depends r-rcpp: :depends r-rcpparmadillo: ``>=0.7.100`` :depends r-readr: :depends r-reshape2: :depends r-scales: :depends r-shiny: :depends r-shinycssloaders: :depends r-shinydashboard: :depends r-shinywidgets: :depends r-survival: :depends r-survivalanalysis: :depends r-survminer: :depends r-tibble: :depends r-tidyr: :depends r-vgam: :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-signer and update with:: mamba update bioconductor-signer To create a new environment, run:: mamba create --name myenvname bioconductor-signer 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-signer: (see `bioconductor-signer/tags`_ for valid values for ````) .. |downloads_bioconductor-signer| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-signer.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-signer :alt: (downloads) .. |docker_bioconductor-signer| image:: https://quay.io/repository/biocontainers/bioconductor-signer/status :target: https://quay.io/repository/biocontainers/bioconductor-signer .. _`bioconductor-signer/tags`: https://quay.io/repository/biocontainers/bioconductor-signer?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-signer/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-signer/README.html