:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-dexma' .. highlight: bash bioconductor-dexma ================== .. conda:recipe:: bioconductor-dexma :replaces_section_title: :noindex: Differential Expression Meta\-Analysis :homepage: https://bioconductor.org/packages/3.18/bioc/html/DExMA.html :license: GPL-2 :recipe: /`bioconductor-dexma `_/`meta.yaml `_ performing all the steps of gene expression meta\-analysis considering the possible existence of missing genes. It provides the necessary functions to be able to perform the different methods of gene expression meta\-analysis. In addition\, it contains functions to apply quality controls\, download GEO datasets and show graphical representations of the results. .. conda:package:: bioconductor-dexma |downloads_bioconductor-dexma| |docker_bioconductor-dexma| :versions: ``1.10.6-0``,  ``1.8.0-0``,  ``1.6.0-0``,  ``1.2.0-0``,  ``1.0.0-0`` :depends bioconductor-biobase: ``>=2.62.0,<2.63.0`` :depends bioconductor-dexmadata: ``>=1.10.0,<1.11.0`` :depends bioconductor-geoquery: ``>=2.70.0,<2.71.0`` :depends bioconductor-impute: ``>=1.76.0,<1.77.0`` :depends bioconductor-limma: ``>=3.58.0,<3.59.0`` :depends bioconductor-snpstats: ``>=1.52.0,<1.53.0`` :depends bioconductor-sva: ``>=3.50.0,<3.51.0`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-bnstruct: :depends r-pheatmap: :depends r-plyr: :depends r-rcolorbrewer: :depends r-scales: :depends r-swamp: :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-dexma and update with:: mamba update bioconductor-dexma To create a new environment, run:: mamba create --name myenvname bioconductor-dexma 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-dexma: (see `bioconductor-dexma/tags`_ for valid values for ````) .. |downloads_bioconductor-dexma| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-dexma.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-dexma :alt: (downloads) .. |docker_bioconductor-dexma| image:: https://quay.io/repository/biocontainers/bioconductor-dexma/status :target: https://quay.io/repository/biocontainers/bioconductor-dexma .. _`bioconductor-dexma/tags`: https://quay.io/repository/biocontainers/bioconductor-dexma?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-dexma/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-dexma/README.html