:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-poma' .. highlight: bash bioconductor-poma ================= .. conda:recipe:: bioconductor-poma :replaces_section_title: :noindex: Tools for Omics Data Analysis :homepage: https://bioconductor.org/packages/3.18/bioc/html/POMA.html :license: GPL-3 :recipe: /`bioconductor-poma `_/`meta.yaml `_ A reproducible and easy\-to\-use toolkit for visualization\, pre\-processing\, exploration\, and statistical analysis of omics datasets. The main aim of POMA is to enable a flexible data cleaning and statistical analysis processes in one comprehensible and user\-friendly R package. This package has a Shiny app version called POMAShiny that implements all POMA functions. See https\:\/\/github.com\/pcastellanoescuder\/POMAShiny. See Castellano\-Escuder P\, González\-Domínguez R\, Carmona\-Pontaque F\, et al. \(2021\) \ for more details. .. conda:package:: bioconductor-poma |downloads_bioconductor-poma| |docker_bioconductor-poma| :versions: ``1.12.0-0``,  ``1.10.0-0``,  ``1.8.0-0``,  ``1.4.0-0``,  ``1.2.0-0``,  ``1.0.0-2``,  ``1.0.0-1`` :depends bioconductor-complexheatmap: ``>=2.18.0,<2.19.0`` :depends bioconductor-deseq2: ``>=1.42.0,<1.43.0`` :depends bioconductor-impute: ``>=1.76.0,<1.77.0`` :depends bioconductor-limma: ``>=3.58.0,<3.59.0`` :depends bioconductor-mixomics: ``>=6.26.0,<6.27.0`` :depends bioconductor-rankprod: ``>=3.28.0,<3.29.0`` :depends bioconductor-summarizedexperiment: ``>=1.32.0,<1.33.0`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-broom: :depends r-caret: :depends r-dbscan: :depends r-dplyr: :depends r-ggplot2: :depends r-ggrepel: :depends r-glasso: ``>=1.11`` :depends r-glmnet: :depends r-magrittr: :depends r-randomforest: :depends r-rmarkdown: :depends r-tibble: :depends r-tidyr: :depends r-uwot: :depends r-vegan: :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-poma and update with:: mamba update bioconductor-poma To create a new environment, run:: mamba create --name myenvname bioconductor-poma 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-poma: (see `bioconductor-poma/tags`_ for valid values for ````) .. |downloads_bioconductor-poma| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-poma.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-poma :alt: (downloads) .. |docker_bioconductor-poma| image:: https://quay.io/repository/biocontainers/bioconductor-poma/status :target: https://quay.io/repository/biocontainers/bioconductor-poma .. _`bioconductor-poma/tags`: https://quay.io/repository/biocontainers/bioconductor-poma?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-poma/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-poma/README.html