singscore

DOI: 10.18129/B9.bioc.singscore    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see singscore.

Rank-based single-sample gene set scoring method

Bioconductor version: 3.8

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>

Installation

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

if (!requireNamespace("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")

 

HTML	R Script	singscore
PDF		Reference Manual
Text		NEWS

Details

biocViews	GO, GeneExpression, GeneSetEnrichment, GraphAndNetwork, KEGG, Software
Version	1.2.2
In Bioconductor since	BioC 3.7 (R-3.5) (1 year)
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
LinkingTo
Suggests	knitr, rmarkdown, testthat
SystemRequirements
Enhances
URL	https://github.com/DavisLaboratory/singscore
BugReports	https://github.com/DavisLaboratory/singscore/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	singscore_1.2.2.tar.gz
Windows Binary	singscore_1.2.2.zip
Mac OS X 10.11 (El Capitan)	singscore_1.2.2.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	http://bioconductor.org/packages/singscore/
Package Downloads Report	Download Stats