:orphan: .. only available via index, not via toctree .. title:: Package Recipe 'bioconductor-cellscore' .. highlight: bash bioconductor-cellscore ====================== .. conda:recipe:: bioconductor-cellscore :replaces_section_title: :noindex: Tool for Evaluation of Cell Identity from Transcription Profiles :homepage: https://bioconductor.org/packages/3.18/bioc/html/CellScore.html :license: GPL-3 :recipe: /`bioconductor-cellscore `_/`meta.yaml `_ The CellScore package contains functions to evaluate the cell identity of a test sample\, given a cell transition defined with a starting \(donor\) cell type and a desired target cell type. The evaluation is based upon a scoring system\, which uses a set of standard samples of known cell types\, as the reference set. The functions have been carried out on a large set of microarray data from one platform \(Affymetrix Human Genome U133 Plus 2.0\). In principle\, the method could be applied to any expression dataset\, provided that there are a sufficient number of standard samples and that the data are normalized. .. conda:package:: bioconductor-cellscore |downloads_bioconductor-cellscore| |docker_bioconductor-cellscore| :versions: .. raw:: html
1.22.0-01.20.0-01.18.0-01.14.0-01.12.0-01.10.0-11.10.0-01.8.0-01.6.0-0 ``1.22.0-0``,  ``1.20.0-0``,  ``1.18.0-0``,  ``1.14.0-0``,  ``1.12.0-0``,  ``1.10.0-1``,  ``1.10.0-0``,  ``1.8.0-0``,  ``1.6.0-0``,  ``1.4.0-1``,  ``1.2.0-0`` .. raw:: html
:depends bioconductor-biobase: ``>=2.62.0,<2.63.0`` :depends bioconductor-summarizedexperiment: ``>=1.32.0,<1.33.0`` :depends r-base: ``>=4.3,<4.4.0a0`` :depends r-gplots: ``>=3.0.1`` :depends r-lsa: ``>=0.73.1`` :depends r-rcolorbrewer: ``>=1.1-2`` :depends r-squash: ``>=1.0.8`` :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-cellscore and update with:: mamba update bioconductor-cellscore To create a new environment, run:: mamba create --name myenvname bioconductor-cellscore 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-cellscore: (see `bioconductor-cellscore/tags`_ for valid values for ````) .. |downloads_bioconductor-cellscore| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-cellscore.svg?style=flat :target: https://anaconda.org/bioconda/bioconductor-cellscore :alt: (downloads) .. |docker_bioconductor-cellscore| image:: https://quay.io/repository/biocontainers/bioconductor-cellscore/status :target: https://quay.io/repository/biocontainers/bioconductor-cellscore .. _`bioconductor-cellscore/tags`: https://quay.io/repository/biocontainers/bioconductor-cellscore?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-cellscore/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-cellscore/README.html