clusterExperiment

DOI: 10.18129/B9.bioc.clusterExperiment    

Compare Clusterings for Single-Cell Sequencing

Bioconductor version: Release (3.6)

Provides functionality for running and comparing many different clusterings of single-cell sequencing data or other large mRNA Expression data sets.

Author: Elizabeth Purdom [aut, cre, cph], Davide Risso [aut], Marla Johnson [ctb]

Maintainer: Elizabeth Purdom <epurdom at stat.berkeley.edu>

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("clusterExperiment")

Documentation

HTML	R Script	clusterExperiment Vignette
PDF		Reference Manual
Text		NEWS

Details

biocViews	Clustering, RNASeq, Sequencing, SingleCell, Software
Version	1.4.0
In Bioconductor since	BioC 3.4 (R-3.3) (1.5 years)
License	Artistic-2.0
Depends	R (>= 3.4), SummarizedExperiment
Imports	methods, NMF, RColorBrewer, ape, phylobase, cluster, stats, limma, dendextend, howmany, locfdr, matrixStats, graphics, parallel, RSpectra, kernlab, stringr
LinkingTo
Suggests	BiocStyle, knitr, testthat, scRNAseq, MAST
SystemRequirements
Enhances
URL
BugReports	https://github.com/epurdom/clusterExperiment/issues
Depends On Me
Imports Me
Suggests Me
Build Report

Package Archives

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

Source Package	clusterExperiment_1.4.0.tar.gz
Windows Binary	clusterExperiment_1.4.0.zip
Mac OS X 10.11 (El Capitan)	clusterExperiment_1.4.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/clusterExperiment
Package Short Url	http://bioconductor.org/packages/clusterExperiment/
Package Downloads Report	Download Stats