:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-paa' .. highlight: bash bioconductor-paa ================ .. conda:recipe:: bioconductor-paa :replaces_section_title: :noindex: PAA \(Protein Array Analyzer\) :homepage: https://bioconductor.org/packages/3.18/bioc/html/PAA.html :license: BSD_3_clause + file LICENSE :recipe: /`bioconductor-paa `_/`meta.yaml `_ PAA imports single color \(protein\) microarray data that has been saved in gpr file format \- esp. ProtoArray data. After preprocessing \(background correction\, batch filtering\, normalization\) univariate feature preselection is performed \(e.g.\, using the \"minimum M statistic\" approach \- hereinafter referred to as \"mMs\"\). Subsequently\, a multivariate feature selection is conducted to discover biomarker candidates. Therefore\, either a frequency\-based backwards elimination aproach or ensemble feature selection can be used. PAA provides a complete toolbox of analysis tools including several different plots for results examination and evaluation. .. conda:package:: bioconductor-paa |downloads_bioconductor-paa| |docker_bioconductor-paa| :versions: .. raw:: html
1.36.0-01.34.0-01.32.0-11.32.0-01.28.0-21.28.0-11.28.0-01.26.0-01.24.0-1 ``1.36.0-0``,  ``1.34.0-0``,  ``1.32.0-1``,  ``1.32.0-0``,  ``1.28.0-2``,  ``1.28.0-1``,  ``1.28.0-0``,  ``1.26.0-0``,  ``1.24.0-1``,  ``1.24.0-0``,  ``1.22.0-0``,  ``1.20.0-0``,  ``1.18.0-1``,  ``1.16.0-0`` .. raw:: html
:depends bioconductor-limma: ``>=3.58.0,<3.59.0`` :depends bioconductor-limma: ``>=3.58.1,<3.59.0a0`` :depends bioconductor-sva: ``>=3.50.0,<3.51.0`` :depends bioconductor-sva: ``>=3.50.0,<3.51.0a0`` :depends libblas: ``>=3.9.0,<4.0a0`` :depends libgcc-ng: ``>=12`` :depends liblapack: ``>=3.9.0,<4.0a0`` :depends libstdcxx-ng: ``>=12`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-e1071: :depends r-gplots: :depends r-gtools: :depends r-mass: :depends r-mrmre: :depends r-randomforest: :depends r-rcpp: ``>=0.11.6`` :depends r-rocr: :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-paa and update with:: mamba update bioconductor-paa To create a new environment, run:: mamba create --name myenvname bioconductor-paa 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-paa: (see `bioconductor-paa/tags`_ for valid values for ````) .. |downloads_bioconductor-paa| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-paa.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-paa :alt: (downloads) .. |docker_bioconductor-paa| image:: https://quay.io/repository/biocontainers/bioconductor-paa/status :target: https://quay.io/repository/biocontainers/bioconductor-paa .. _`bioconductor-paa/tags`: https://quay.io/repository/biocontainers/bioconductor-paa?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-paa/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-paa/README.html