singscore

DOI: 10.18129/B9.bioc.singscore    

Rank-based single-sample gene set scoring method

Bioconductor version: Release (3.9)

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

Maintainer: Dharmesh D. Bhuva <bhuva.d at wehi.edu.au>

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

Installation

To install this package, start R (version "3.6") 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 1. Differential co-expression analysis
PDF   Reference Manual
Text   NEWS

Details

biocViews GeneExpression, GeneSetEnrichment, Software
Version 1.4.0
In Bioconductor since BioC 3.7 (R-3.5) (1 year)
License GPL-3
Depends R (>= 3.5), GSEABase
Imports methods, stats, graphics, ggplot2, grDevices, ggrepel, plotly, tidyr, plyr, magrittr, reshape, edgeR, RColorBrewer, Biobase, BiocParallel, SummarizedExperiment, matrixStats, reshape2, S4Vectors
LinkingTo
Suggests knitr, rmarkdown, testthat
SystemRequirements
Enhances
URL https://davislaboratory.github.io/singscore
BugReports https://github.com/DavisLaboratory/singscore/issues
Depends On Me
Imports Me SingscoreAMLMutations
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package singscore_1.4.0.tar.gz
Windows Binary singscore_1.4.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) singscore_1.4.0.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 http://bioconductor.org/packages/singscore/
Package Downloads Report Download Stats

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