:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'r-cssam' .. highlight: bash r-cssam ======= .. conda:recipe:: r-cssam :replaces_section_title: :noindex: Cell\-type specific differential expression of a microarray experiment of heterogeneous tissue samples\, using SAM. :homepage: https://github.com/shenorrLab/csSAM :license: GPL / LGPL :recipe: /`r-cssam `_/`meta.yaml `_ :links: doi: :doi:`10.1038/nmeth.1439` .. conda:package:: r-cssam |downloads_r-cssam| |docker_r-cssam| :versions: ``1.4-6``,  ``1.4-5``,  ``1.4-4``,  ``1.4-3``,  ``1.4-2``,  ``1.4-1``,  ``1.4-0``,  ``0-0`` :depends bioconductor-biobase: ``>=2.50.0`` :depends libgcc-ng: ``>=12`` :depends libstdcxx-ng: ``>=12`` :depends r-base: ``>=4.0,<4.1`` :depends r-formula: ``>=1.2_4`` :depends r-ggplot2: ``>=3.3.5`` :depends r-pkgmaker: ``>=0.32.2`` :depends r-plyr: ``>=1.8.6`` :depends r-rcpp: ``>=1.0.7`` :depends r-rngtools: ``>=1.5.2`` :depends r-scales: ``>=1.1.1`` :depends xbioc: ``>=0.1.19`` :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 r-cssam and update with:: mamba update r-cssam To create a new environment, run:: mamba create --name myenvname r-cssam 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/r-cssam: (see `r-cssam/tags`_ for valid values for ````) .. |downloads_r-cssam| image:: https://img.shields.io/conda/dn/bioconda/r-cssam.svg?style=flat :target: https://anaconda.org/bioconda/r-cssam :alt: (downloads) .. |docker_r-cssam| image:: https://quay.io/repository/biocontainers/r-cssam/status :target: https://quay.io/repository/biocontainers/r-cssam .. _`r-cssam/tags`: https://quay.io/repository/biocontainers/r-cssam?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/r-cssam/README.html) .. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat :target: http://bioconda.github.io/recipes/r-cssam/README.html