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Bioconductor - CellScore

CellScore

This is the released version of CellScore; for the devel version, see CellScore.

Tool for Evaluation of Cell Identity from Transcription Profiles

Bioconductor version: Release (3.21)

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.

Author: Nancy Mah [aut, cre], Katerina Taskova [aut], Justin Marsh [aut]

Maintainer: Nancy Mah <nancy.l.mah at googlemail.com>

Citation (from within R, enter citation("CellScore")): Installation

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("CellScore")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("CellScore")
Details biocViews DataImport, GeneExpression, Microarray, MultipleComparison, ReportWriting, Software, Transcription, Visualization Version 1.27.0 In Bioconductor since BioC 3.7 (R-3.5) (7 years) License GPL-3 Depends R (>= 4.3.0) Imports Biobase(>= 2.39.1), graphics (>= 3.5.0), grDevices (>= 3.5.0), gplots (>= 3.0.1), lsa (>= 0.73.1), methods (>= 3.5.0), RColorBrewer (>= 1.1-2), squash (>= 1.0.8), stats (>= 3.5.0), utils (>= 3.5.0), SummarizedExperiment System Requirements URL See More Package Archives

Follow Installation instructions to use this package in your R session.

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