SC3

This is the development version of SC3; for the stable release version, see SC3.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3

Single-Cell Consensus Clustering

Bioconductor version: Development (3.24)

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>

Citation (from within R, enter citation("SC3")):

Vladimir Kiselev. SC3: Single-Cell Consensus Clustering. doi:10.18129/B9.bioc.SC3, R package version 1.41.0, https://bioconductor.org/packages/SC3.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

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

## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")

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")

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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Classification, Clustering, DataRepresentation, DifferentialExpression, DimensionReduction, GUI, ImmunoOncology, RNASeq, SingleCell, Software, SupportVectorMachine, Transcription, Transcriptomics, Visualization
Version	1.41.0
In Bioconductor since	BioC 3.3 (R-3.3) (10.5 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
System Requirements
URL	https://github.com/hemberg-lab/SC3
Bug Reports	https://support.bioconductor.org/t/sc3/

Suggests	knitr, rmarkdown, mclust, scater, BiocStyle
Linking To	Rcpp, RcppArmadillo
Enhances
Depends On Me
Imports Me	FEAST
Suggests Me	InteractiveComplexHeatmap, scTreeViz, VAExprs
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	SC3_1.41.0.tar.gz
Windows Binary (x86_64)	SC3_1.41.0.zip (64-bit only)
macOS Binary (big-sur-x86_64)	SC3_1.41.0.tgz
macOS Binary (sonoma-arm64)	SC3_1.41.0.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