:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-constand' .. highlight: bash bioconductor-constand ===================== .. conda:recipe:: bioconductor-constand :replaces_section_title: :noindex: Data normalization by matrix raking :homepage: https://bioconductor.org/packages/3.18/bioc/html/CONSTANd.html :license: file LICENSE :recipe: /`bioconductor-constand `_/`meta.yaml `_ Normalizes a data matrix \`data\` by raking \(using the RAS method by Bacharach\, see references\) the Nrows by Ncols matrix such that the row means and column means equal 1. The result is a normalized data matrix \`K\=RAS\`\, a product of row mulipliers \`R\` and column multipliers \`S\` with the original matrix \`A\`. Missing information needs to be presented as \`NA\` values and not as zero values\, because CONSTANd is able to ignore missing values when calculating the mean. Using CONSTANd normalization allows for the direct comparison of values between samples within the same and even across different CONSTANd\-normalized data matrices. .. conda:package:: bioconductor-constand |downloads_bioconductor-constand| |docker_bioconductor-constand| :versions: ``1.10.0-0``,  ``1.8.0-0``,  ``1.6.0-0``,  ``1.2.0-0``,  ``1.0.0-0`` :depends r-base: ``>=4.3,<4.4.0a0`` :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-constand and update with:: mamba update bioconductor-constand To create a new environment, run:: mamba create --name myenvname bioconductor-constand 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-constand: (see `bioconductor-constand/tags`_ for valid values for ````) .. |downloads_bioconductor-constand| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-constand.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-constand :alt: (downloads) .. |docker_bioconductor-constand| image:: https://quay.io/repository/biocontainers/bioconductor-constand/status :target: https://quay.io/repository/biocontainers/bioconductor-constand .. _`bioconductor-constand/tags`: https://quay.io/repository/biocontainers/bioconductor-constand?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-constand/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-constand/README.html