:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-miaviz' .. highlight: bash bioconductor-miaviz =================== .. conda:recipe:: bioconductor-miaviz :replaces_section_title: :noindex: Microbiome Analysis Plotting and Visualization :homepage: https://bioconductor.org/packages/3.18/bioc/html/miaViz.html :license: Artistic-2.0 | file LICENSE :recipe: /`bioconductor-miaviz `_/`meta.yaml `_ The miaViz package implements functions to visualize TreeSummarizedExperiment objects especially in the context of microbiome analysis. Part of the mia family of R\/Bioconductor packages. .. conda:package:: bioconductor-miaviz |downloads_bioconductor-miaviz| |docker_bioconductor-miaviz| :versions: ``1.10.0-0``,  ``1.8.0-0``,  ``1.6.0-0``,  ``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-delayedarray: ``>=0.28.0,<0.29.0`` :depends bioconductor-dirichletmultinomial: ``>=1.44.0,<1.45.0`` :depends bioconductor-ggtree: ``>=3.10.0,<3.11.0`` :depends bioconductor-mia: ``>=1.10.0,<1.11.0`` :depends bioconductor-s4vectors: ``>=0.40.0,<0.41.0`` :depends bioconductor-scater: ``>=1.30.0,<1.31.0`` :depends bioconductor-singlecellexperiment: ``>=1.24.0,<1.25.0`` :depends bioconductor-summarizedexperiment: ``>=1.32.0,<1.33.0`` :depends bioconductor-treesummarizedexperiment: ``>=2.10.0,<2.11.0`` :depends r-ape: :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-dplyr: :depends r-ggnewscale: :depends r-ggplot2: :depends r-ggraph: ``>=2.0`` :depends r-ggrepel: :depends r-purrr: :depends r-rlang: :depends r-tibble: :depends r-tidygraph: :depends r-tidyr: :depends r-tidytree: :depends r-viridis: :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-miaviz and update with:: mamba update bioconductor-miaviz To create a new environment, run:: mamba create --name myenvname bioconductor-miaviz 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-miaviz: (see `bioconductor-miaviz/tags`_ for valid values for ````) .. |downloads_bioconductor-miaviz| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-miaviz.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-miaviz :alt: (downloads) .. |docker_bioconductor-miaviz| image:: https://quay.io/repository/biocontainers/bioconductor-miaviz/status :target: https://quay.io/repository/biocontainers/bioconductor-miaviz .. _`bioconductor-miaviz/tags`: https://quay.io/repository/biocontainers/bioconductor-miaviz?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-miaviz/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-miaviz/README.html