:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-microbiotaprocess' .. highlight: bash bioconductor-microbiotaprocess ============================== .. conda:recipe:: bioconductor-microbiotaprocess :replaces_section_title: :noindex: A comprehensive R package for managing and analyzing microbiome and other ecological data within the tidy framework :homepage: https://bioconductor.org/packages/3.18/bioc/html/MicrobiotaProcess.html :license: GPL (>= 3.0) :recipe: /`bioconductor-microbiotaprocess `_/`meta.yaml `_ MicrobiotaProcess is an R package for analysis\, visualization and biomarker discovery of microbial datasets. It introduces MPSE class\, this make it more interoperable with the existing computing ecosystem. Moreover\, it introduces a tidy microbiome data structure paradigm and analysis grammar. It provides a wide variety of microbiome data analysis procedures under the unified and common framework \(tidy\-like framework\). .. conda:package:: bioconductor-microbiotaprocess |downloads_bioconductor-microbiotaprocess| |docker_bioconductor-microbiotaprocess| :versions: ``1.14.0-0``,  ``1.12.2-0``,  ``1.10.0-0``,  ``1.6.1-0``,  ``1.4.0-0``,  ``1.2.1-0``,  ``1.2.0-0``,  ``1.0.3-0`` :depends bioconductor-biostrings: ``>=2.70.0,<2.71.0`` :depends bioconductor-ggtree: ``>=3.10.0,<3.11.0`` :depends bioconductor-ggtreeextra: ``>=1.12.0,<1.13.0`` :depends bioconductor-summarizedexperiment: ``>=1.32.0,<1.33.0`` :depends bioconductor-treeio: ``>=1.26.0,<1.27.0`` :depends r-ape: :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-cli: :depends r-coin: :depends r-data.table: :depends r-dplyr: :depends r-dtplyr: :depends r-foreach: :depends r-ggfun: ``>=0.1.1`` :depends r-ggplot2: :depends r-ggrepel: :depends r-ggsignif: :depends r-ggstar: :depends r-magrittr: :depends r-mass: :depends r-patchwork: :depends r-pillar: :depends r-plyr: :depends r-rlang: :depends r-tibble: :depends r-tidyr: :depends r-tidyselect: :depends r-tidytree: ``>=0.4.2`` :depends r-vegan: :depends r-zoo: :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-microbiotaprocess and update with:: mamba update bioconductor-microbiotaprocess To create a new environment, run:: mamba create --name myenvname bioconductor-microbiotaprocess 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-microbiotaprocess: (see `bioconductor-microbiotaprocess/tags`_ for valid values for ````) .. |downloads_bioconductor-microbiotaprocess| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-microbiotaprocess.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-microbiotaprocess :alt: (downloads) .. |docker_bioconductor-microbiotaprocess| image:: https://quay.io/repository/biocontainers/bioconductor-microbiotaprocess/status :target: https://quay.io/repository/biocontainers/bioconductor-microbiotaprocess .. _`bioconductor-microbiotaprocess/tags`: https://quay.io/repository/biocontainers/bioconductor-microbiotaprocess?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-microbiotaprocess/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-microbiotaprocess/README.html