:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-genomautomorphism' .. highlight: bash bioconductor-genomautomorphism ============================== .. conda:recipe:: bioconductor-genomautomorphism :replaces_section_title: :noindex: Compute the automorphisms between DNA\'s Abelian group representations :homepage: https://bioconductor.org/packages/3.18/bioc/html/GenomAutomorphism.html :license: Artistic-2.0 :recipe: /`bioconductor-genomautomorphism `_/`meta.yaml `_ This is a R package to compute the automorphisms between pairwise aligned DNA sequences represented as elements from a Genomic Abelian group. In a general scenario\, from genomic regions till the whole genomes from a given population \(from any species or close related species\) can be algebraically represented as a direct sum of cyclic groups or more specifically Abelian p\-groups. Basically\, we propose the representation of multiple sequence alignments of length N bp as element of a finite Abelian group created by the direct sum of homocyclic Abelian group of prime\-power order. .. conda:package:: bioconductor-genomautomorphism |downloads_bioconductor-genomautomorphism| |docker_bioconductor-genomautomorphism| :versions: ``1.4.0-0``,  ``1.2.0-0``,  ``1.0.0-0`` :depends bioconductor-biocgenerics: ``>=0.48.0,<0.49.0`` :depends bioconductor-biocparallel: ``>=1.36.0,<1.37.0`` :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-s4vectors: ``>=0.40.0,<0.41.0`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-data.table: :depends r-doparallel: :depends r-dplyr: :depends r-foreach: :depends r-numbers: :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-genomautomorphism and update with:: mamba update bioconductor-genomautomorphism To create a new environment, run:: mamba create --name myenvname bioconductor-genomautomorphism 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-genomautomorphism: (see `bioconductor-genomautomorphism/tags`_ for valid values for ````) .. |downloads_bioconductor-genomautomorphism| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-genomautomorphism.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-genomautomorphism :alt: (downloads) .. |docker_bioconductor-genomautomorphism| image:: https://quay.io/repository/biocontainers/bioconductor-genomautomorphism/status :target: https://quay.io/repository/biocontainers/bioconductor-genomautomorphism .. _`bioconductor-genomautomorphism/tags`: https://quay.io/repository/biocontainers/bioconductor-genomautomorphism?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-genomautomorphism/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-genomautomorphism/README.html