:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-eximir' .. highlight: bash bioconductor-eximir =================== .. conda:recipe:: bioconductor-eximir :replaces_section_title: :noindex: R functions for the normalization of Exiqon miRNA array data :homepage: https://bioconductor.org/packages/3.18/bioc/html/ExiMiR.html :license: GPL-2 :recipe: /`bioconductor-eximir `_/`meta.yaml `_ :links: biotools: :biotools:`eximir`, doi: :doi:`10.1186/1756-0500-7-302` This package contains functions for reading raw data in ImaGene TXT format obtained from Exiqon miRCURY LNA arrays\, annotating them with appropriate GAL files\, and normalizing them using a spike\-in probe\-based method. Other platforms and data formats are also supported. .. conda:package:: bioconductor-eximir |downloads_bioconductor-eximir| |docker_bioconductor-eximir| :versions: .. raw:: html
2.44.0-02.42.0-02.40.0-02.36.0-02.34.0-02.32.0-12.32.0-02.30.0-02.28.0-0 ``2.44.0-0``,  ``2.42.0-0``,  ``2.40.0-0``,  ``2.36.0-0``,  ``2.34.0-0``,  ``2.32.0-1``,  ``2.32.0-0``,  ``2.30.0-0``,  ``2.28.0-0``,  ``2.26.0-1``,  ``2.24.0-0``,  ``2.22.0-0``,  ``2.20.0-0`` .. raw:: html
:depends bioconductor-affy: ``>=1.80.0,<1.81.0`` :depends bioconductor-affyio: ``>=1.72.0,<1.73.0`` :depends bioconductor-biobase: ``>=2.62.0,<2.63.0`` :depends bioconductor-limma: ``>=3.58.0,<3.59.0`` :depends bioconductor-preprocesscore: ``>=1.64.0,<1.65.0`` :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-eximir and update with:: mamba update bioconductor-eximir To create a new environment, run:: mamba create --name myenvname bioconductor-eximir 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-eximir: (see `bioconductor-eximir/tags`_ for valid values for ````) .. |downloads_bioconductor-eximir| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-eximir.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-eximir :alt: (downloads) .. |docker_bioconductor-eximir| image:: https://quay.io/repository/biocontainers/bioconductor-eximir/status :target: https://quay.io/repository/biocontainers/bioconductor-eximir .. _`bioconductor-eximir/tags`: https://quay.io/repository/biocontainers/bioconductor-eximir?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-eximir/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-eximir/README.html