Biobase
Biobase: Base functions for Bioconductor
Bioconductor version: 2.7
Functions that are needed by many other packages or which replace R functions.
Author: R. Gentleman, V. Carey, M. Morgan, S. Falcon
Maintainer: Biocore Team c/o BioC user list <bioconductor at stat.math.ethz.ch>
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("Biobase")
To cite this package in a publication, start R and enter:
citation("Biobase")
Documentation
PDF
R Script
An introduction to Biobase and ExpressionSets
PDF
R Script
Notes for writing introductory 'how to' documents
Details
Depends
R (>= 2.7.0), methods, utils
Imports
System Requirements
License
Artistic-2.0
Depends On Me
ACME,
affy,
affycomp,
affyContam,
affycoretools,
affylmGUI,
affyPLM,
affyQCReport,
Agi4x44PreProcess,
AgiMicroRna,
ALL,
altcdfenvs,
annaffy,
AnnotationDbi,
ArrayExpress,
arrayMvout,
ArrayTools,
beadarray,
beadarraySNP,
bgx,
BicARE,
BiocCaseStudies,
bioDist,
BioMVCClass,
BioNet,
Category,
CCl4,
cellHTS,
cellHTS2,
CGHbase,
CGHcall,
CGHregions,
charm,
clippda,
CLL,
clusterStab,
CMA,
codelink,
colonCA,
convert,
copa,
crlmm,
davidTiling,
ddCt,
DESeq,
DFP,
DLBCL,
dressCheck,
dualKS,
dyebias,
EBarrays,
edd,
eisa,
encoDnaseI,
factDesign,
fibroEset,
flowClust,
flowCore,
frma,
gaga,
gaschYHS,
GeneAnswers,
GeneMeta,
geneplotter,
geneRecommender,
GeneRegionScan,
GeneSelectMMD,
GeneSpring,
GeneTraffic,
genomeIntervals,
GEOquery,
GGBase,
GGdata,
GGtools,
golubEsets,
goProfiles,
GOstats,
GSEABase,
GSEAlm,
harbChIP,
HELP,
hmyriB36,
hopach,
HTqPCR,
humanStemCell,
idiogram,
iterativeBMA,
Iyer517,
kidpack,
leeBamViews,
LMGene,
lumi,
lumiBarnes,
lungExpression,
LVSmiRNA,
macat,
maDB,
MAQCsubset,
MAQCsubsetAFX,
MAQCsubsetILM,
maSigPro,
MergeMaid,
methylumi,
Mfuzz,
MiChip,
MLInterfaces,
Mulcom,
multtest,
mvoutData,
Neve2006,
oligoClasses,
oneChannelGUI,
ontoTools,
OrderedList,
OTUbase,
OutlierD,
PAnnBuilder,
panp,
pcaMethods,
pcot2,
pdInfoBuilder,
pdmclass,
PGSEA,
plgem,
PLPE,
prada,
ProData,
PROMISE,
puma,
pumadata,
qpcrNorm,
R453Plus1Toolbox,
RbcBook1,
rbsurv,
reb,
RefPlus,
Resourcerer,
rHVDM,
Ringo,
RMAGEML,
Rmagpie,
rMAT,
RpsiXML,
RTCA,
RTools4TB,
Rtreemix,
safe,
siggenes,
simpleaffy,
SNPchip,
SpeCond,
SpikeInSubset,
spkTools,
tigre,
tilingArray,
topGO,
tspair,
vsn,
webbioc,
XDE,
yeastCC
Imports Me
ABarray,
aCGH,
adSplit,
affy,
affyQCReport,
AgiMicroRna,
annotate,
AnnotationDbi,
annotationTools,
arrayQualityMetrics,
ArrayTools,
attract,
betr,
biocViews,
BioSeqClass,
Biostrings,
Category,
CGHnormaliter,
charm,
ChromHeatMap,
ConsensusClusterPlus,
cycle,
EBarrays,
ecolitk,
farms,
flowCore,
flowFlowJo,
flowFP,
flowMeans,
flowStats,
flowUtils,
flowViz,
frma,
frmaTools,
gcrma,
genefilter,
GeneMeta,
geneplotter,
geneRecommender,
GeneRegionScan,
GeneSelectMMD,
GeneSelector,
GeneSpring,
GeneTraffic,
GEOsubmission,
girafe,
globaltest,
GOstats,
GSEABase,
Harshlight,
HEM,
hopach,
HTqPCR,
imageHTS,
lapmix,
LiquidAssociation,
lumi,
maanova,
makecdfenv,
makePlatformDesign,
maSigPro,
mBPCR,
MCRestimate,
metaArray,
methylumi,
MiChip,
MiPP,
multiscan,
oligo,
OrderedList,
PAnnBuilder,
panp,
PCpheno,
plateCore,
plier,
ppiStats,
prada,
PROMISE,
puma,
qpgraph,
R453Plus1Toolbox,
rflowcyt,
Rmagpie,
rMAT,
rnaSeqMap,
Rtreemix,
safe,
SAGx,
ShortRead,
simpleaffy,
SLGI,
SNPchip,
spkTools,
splicegear,
tigre,
timecourse,
topGO,
twilight,
webbioc,
XDE
Suggests Me
annotate,
betr,
BiocCaseStudies,
biocDatasets,
biocViews,
BSgenome,
Category,
dyebiasexamples,
estrogen,
farms,
genefilter,
geneplotter,
GlobalAncova,
globaltest,
hexbin,
les,
nem,
pkgDepTools,
ROC,
tkWidgets,
vbmp,
widgetTools,
yeastExpData,
yeastRNASeq
Version
2.10.0
Since
Bioconductor 1.6 (R-2.1) or earlier
Package Downloads