SC3

DOI: 10.18129/B9.bioc.SC3    

This package is for version 3.14 of Bioconductor; for the stable, up-to-date release version, see SC3.

Single-Cell Consensus Clustering

Bioconductor version: 3.14

A tool for unsupervised clustering and analysis of single cell RNA-Seq data.

Author: Vladimir Kiselev

Maintainer: Vladimir Kiselev <vladimir.yu.kiselev at gmail.com>

Installation

To install this package, start R (version "4.1") and enter:

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

BiocManager::install("SC3")

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("SC3")

 

HTML	R Script	SC3 package manual
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	Classification, Clustering, DataRepresentation, DifferentialExpression, DimensionReduction, GUI, ImmunoOncology, RNASeq, SingleCell, Software, SupportVectorMachine, Transcription, Transcriptomics, Visualization
Version	1.22.0
In Bioconductor since	BioC 3.3 (R-3.3) (6 years)
License	GPL-3
Depends	R (>= 3.3)
Imports	graphics, stats, utils, methods, e1071, parallel, foreach, doParallel, doRNG, shiny, ggplot2, pheatmap (>= 1.0.8), ROCR, robustbase, rrcov, cluster, WriteXLS, Rcpp (>= 0.11.1), SummarizedExperiment, SingleCellExperiment, BiocGenerics, S4Vectors
LinkingTo	Rcpp, RcppArmadillo
Suggests	knitr, rmarkdown, mclust, scater
SystemRequirements
Enhances
URL	https://github.com/hemberg-lab/SC3
BugReports	https://support.bioconductor.org/t/sc3/
Depends On Me
Imports Me	FEAST
Suggests Me	InteractiveComplexHeatmap, scTreeViz, VAExprs
Links To Me
Build Report

Package Archives

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

Source Package	SC3_1.22.0.tar.gz
Windows Binary	SC3_1.22.0.zip
macOS 10.13 (High Sierra)	SC3_1.22.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/SC3
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/SC3
Package Short Url	https://bioconductor.org/packages/SC3/
Package Downloads Report	Download Stats