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SC3

Single-Cell Consensus Clustering


Bioconductor version: Release (3.18)

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")):

Installation

To install this package, start R (version "4.3") 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")
SC3 package manual HTML R Script
Reference Manual PDF
NEWS Text
LICENSE Text

Details

biocViews Classification, Clustering, DataRepresentation, DifferentialExpression, DimensionReduction, GUI, ImmunoOncology, RNASeq, SingleCell, Software, SupportVectorMachine, Transcription, Transcriptomics, Visualization
Version 1.30.0
In Bioconductor since BioC 3.3 (R-3.3) (8 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/
See More
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

Package Archives

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

Source Package SC3_1.30.0.tar.gz
Windows Binary SC3_1.30.0.zip
macOS Binary (x86_64) SC3_1.30.0.tgz
macOS Binary (arm64) SC3_1.30.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/SC3
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/SC3
Bioc Package Browser https://code.bioconductor.org/browse/SC3/
Package Short Url https://bioconductor.org/packages/SC3/
Package Downloads Report Download Stats