:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-mwastools' .. highlight: bash bioconductor-mwastools ====================== .. conda:recipe:: bioconductor-mwastools :replaces_section_title: :noindex: MWASTools\: an integrated pipeline to perform metabolome\-wide association studies :homepage: https://bioconductor.org/packages/3.18/bioc/html/MWASTools.html :license: CC BY-NC-ND 4.0 :recipe: /`bioconductor-mwastools `_/`meta.yaml `_ MWASTools provides a complete pipeline to perform metabolome\-wide association studies. Key functionalities of the package include\: quality control analysis of metabonomic data\; MWAS using different association models \(partial correlations\; generalized linear models\)\; model validation using non\-parametric bootstrapping\; visualization of MWAS results\; NMR metabolite identification using STOCSY\; and biological interpretation of MWAS results. .. conda:package:: bioconductor-mwastools |downloads_bioconductor-mwastools| |docker_bioconductor-mwastools| :versions: .. raw:: html
1.26.0-01.24.0-01.22.0-01.18.0-01.16.0-01.14.0-11.14.0-01.12.0-01.10.0-0 ``1.26.0-0``,  ``1.24.0-0``,  ``1.22.0-0``,  ``1.18.0-0``,  ``1.16.0-0``,  ``1.14.0-1``,  ``1.14.0-0``,  ``1.12.0-0``,  ``1.10.0-0``,  ``1.8.0-1``,  ``1.6.0-0``,  ``1.4.0-0``,  ``1.2.0-0`` .. raw:: html
:depends bioconductor-complexheatmap: ``>=2.18.0,<2.19.0`` :depends bioconductor-kegggraph: ``>=1.62.0,<1.63.0`` :depends bioconductor-keggrest: ``>=1.42.0,<1.43.0`` :depends bioconductor-qvalue: ``>=2.34.0,<2.35.0`` :depends bioconductor-summarizedexperiment: ``>=1.32.0,<1.33.0`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-boot: :depends r-car: :depends r-ggplot2: :depends r-glm2: :depends r-gridextra: :depends r-igraph: :depends r-ppcor: :depends r-rcurl: :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-mwastools and update with:: mamba update bioconductor-mwastools To create a new environment, run:: mamba create --name myenvname bioconductor-mwastools 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-mwastools: (see `bioconductor-mwastools/tags`_ for valid values for ````) .. |downloads_bioconductor-mwastools| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-mwastools.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-mwastools :alt: (downloads) .. |docker_bioconductor-mwastools| image:: https://quay.io/repository/biocontainers/bioconductor-mwastools/status :target: https://quay.io/repository/biocontainers/bioconductor-mwastools .. _`bioconductor-mwastools/tags`: https://quay.io/repository/biocontainers/bioconductor-mwastools?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-mwastools/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-mwastools/README.html