:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-mmuphin' .. highlight: bash bioconductor-mmuphin ==================== .. conda:recipe:: bioconductor-mmuphin :replaces_section_title: :noindex: Meta\-analysis Methods with Uniform Pipeline for Heterogeneity in Microbiome Studies :homepage: https://bioconductor.org/packages/3.18/bioc/html/MMUPHin.html :license: MIT + file LICENSE :recipe: /`bioconductor-mmuphin `_/`meta.yaml `_ MMUPHin is an R package for meta\-analysis tasks of microbiome cohorts. It has function interfaces for\: a\) covariate\-controlled batch\- and cohort effect adjustment\, b\) meta\-analysis differential abundance testing\, c\) meta\-analysis unsupervised discrete structure \(clustering\) discovery\, and d\) meta\-analysis unsupervised continuous structure discovery. .. conda:package:: bioconductor-mmuphin |downloads_bioconductor-mmuphin| |docker_bioconductor-mmuphin| :versions: ``1.16.0-0``,  ``1.14.0-0``,  ``1.12.0-0``,  ``1.8.0-0``,  ``1.6.1-0``,  ``1.4.1-0``,  ``1.4.0-0``,  ``1.0.0-0`` :depends bioconductor-maaslin2: ``>=1.16.0,<1.17.0`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-cowplot: :depends r-dplyr: :depends r-fpc: :depends r-ggplot2: :depends r-igraph: :depends r-metafor: :depends r-stringr: :depends r-tidyr: :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-mmuphin and update with:: mamba update bioconductor-mmuphin To create a new environment, run:: mamba create --name myenvname bioconductor-mmuphin 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-mmuphin: (see `bioconductor-mmuphin/tags`_ for valid values for ````) .. |downloads_bioconductor-mmuphin| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-mmuphin.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-mmuphin :alt: (downloads) .. |docker_bioconductor-mmuphin| image:: https://quay.io/repository/biocontainers/bioconductor-mmuphin/status :target: https://quay.io/repository/biocontainers/bioconductor-mmuphin .. _`bioconductor-mmuphin/tags`: https://quay.io/repository/biocontainers/bioconductor-mmuphin?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-mmuphin/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-mmuphin/README.html