singscore

This package is for version 3.7 of Bioconductor; for the stable, up-to-date release version, see singscore.

Rank-based single-sample gene set scoring method


Bioconductor version: 3.7

A simple single-sample gene signature scoring method that uses rank-based statistics to analyze the sample's gene expression profile. It scores the expression activities of gene sets at a single-sample level.

Author: Momeneh Foroutan [aut, ctb], Dharmesh Bhuva [aut, ctb], Ruqian Lyu [aut, cre]

Maintainer: Ruqian Lyu <ruqianl at student.unimelb.edu.au>

Citation (from within R, enter citation("singscore")):

Installation

To install this package, start R (version "3.5") and enter:


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

BiocManager::install("singscore")

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("singscore")
singscore HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews GeneExpression, GeneSetEnrichment, Software
Version 1.0.0
In Bioconductor since BioC 3.7 (R-3.5) (6 years)
License GPL-3
Depends R (>= 3.5), GSEABase
Imports methods, stats, graphics, ggplot2, ggsci, grDevices, ggrepel, plotly, tidyr, plyr, magrittr, reshape, edgeR, RColorBrewer, Biobase, BiocParallel, SummarizedExperiment, matrixStats
System Requirements
URL https://github.com/DavisLaboratory/singscore
Bug Reports https://github.com/DavisLaboratory/singscore/issues
See More
Suggests knitr, rmarkdown, testthat
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Package Archives

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

Source Package singscore_1.0.0.tar.gz
Windows Binary singscore_1.0.0.zip
Mac OS X 10.11 (El Capitan) singscore_1.0.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/singscore
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/singscore
Package Short Url https://bioconductor.org/packages/singscore/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.7 Source Archive