To install this package, start R and enter:

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

In most cases, you don't need to download the package archive at all.

SummarizedExperiment

DOI: 10.18129/B9.bioc.SummarizedExperiment

SummarizedExperiment container

Bioconductor version: Release (3.5)

The SummarizedExperiment container contains one or more assays, each represented by a matrix-like object of numeric or other mode. The rows typically represent genomic ranges of interest and the columns represent samples.

Author: Martin Morgan, Valerie Obenchain, Jim Hester, Hervé Pagès

Maintainer: Bioconductor Package Maintainer <maintainer at bioconductor.org>

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

Installation

To install this package, start R and enter:

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

Documentation

HTML	R Script	SummarizedExperiment
PDF		Reference Manual
Text		NEWS

Details

biocViews	Annotation, Coverage, Genetics, GenomeAnnotation, Infrastructure, Sequencing, Software
Version	1.6.5
In Bioconductor since	BioC 3.2 (R-3.2) (2 years)
License	Artistic-2.0
Depends	R (>= 3.2), methods, GenomicRanges(>= 1.27.22), Biobase, DelayedArray(>= 0.1.9)
Imports	utils, stats, tools, Matrix, BiocGenerics(>= 0.15.3), S4Vectors(>= 0.13.13), IRanges(>= 2.7.2), GenomeInfoDb(>= 1.11.4)
LinkingTo
Suggests	annotate, AnnotationDbi, hgu95av2.db, GenomicFeatures, TxDb.Hsapiens.UCSC.hg19.knownGene, BiocStyle, knitr, rmarkdown, digest, jsonlite, rhdf5, HDF5Array(>= 1.4.8), airway, RUnit
SystemRequirements
Enhances
URL
Depends On Me	airway, AllelicImbalance, anamiR, BiSeq, bsseq, clusterExperiment, coseq, csaw, cydar, DaMiRseq, deepSNV, DESeq2, DEXSeq, DiffBind, diffHic, DREAM4, dsQTL, ENmix, epigenomix, EventPointer, ExpressionAtlas, fission, GenoGAM, GenomicAlignments, GenomicFiles, genoset, geuvPack, GRmetrics, HelloRanges, InteractionSet, IntEREst, isomiRs, JunctionSeq, MAST, MBASED, methylPipe, minfi, parathyroidSE, recount, REMP, RIPSeeker, rqt, sampleClassifierData, scone, scRNAseq, SGSeq, simulatorZ, soGGi, VanillaICE, VariantAnnotation, yamss, yriMulti
Imports Me	ALDEx2, alpine, anamiR, BBCAnalyzer, biotmle, biovizBase, BiSeq, BUMHMM, ChIPpeakAnno, CNPBayes, COSMIC.67, DChIPRep, debrowser, DEFormats, easyRNASeq, EnrichmentBrowser, ensemblVEP, epivizrData, erma, FourCSeq, GGBase, ggbio, gQTLBase, gQTLstats, GreyListChIP, gwascat, HTSeqGenie, ideal, IHWpaper, ImpulseDE2, M3D, MADSEQ, methyAnalysis, MethylAid, methylumi, MinimumDistance, MoonlightR, msgbsR, MultiAssayExperiment, MultiDataSet, multiOmicsViz, MutationalPatterns, MWASTools, NADfinder, oligoClasses, pcaExplorer, PureCN, R453Plus1Toolbox, RaggedExperiment, RareVariantVis, readat, regionReport, regsplice, rgsepd, roar, scDD, semisup, SeqArray, SNPchip, SNPhood, SVAPLSseq, systemPipeR, TCGAbiolinks, TCGAbiolinksGUI, TCGAWorkflowData, TCseq, ToPASeq, TSRchitect, TVTB, VariantFiltering
Suggests Me	AnnotationHub, biobroom, biotmleData, epivizr, esetVis, GenomicRanges, globalSeq, HDF5Array, interactiveDisplay, pathprint, pathprintGEOData, podkat, RiboProfiling, splatter
Build Report

Package Archives

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

Source Package	SummarizedExperiment_1.6.5.tar.gz
Windows Binary	SummarizedExperiment_1.6.5.zip
Mac OS X 10.11 (El Capitan)	SummarizedExperiment_1.6.5.tgz
Source Repository	git clone https://git.bioconductor.org/packages/SummarizedExperiment
Package Short Url	http://bioconductor.org/packages/SummarizedExperiment/
Package Downloads Report	Download Stats

Documentation »

Bioconductor

Package vignettes and manuals.
Workflows for learning and use.
Course and conference material.
Videos.
Community resources and tutorials.

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations:

Support site - for questions about Bioconductor packages
Bioc-devel mailing list - for package developers