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ABarray
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AnnBuilder
AnnotationDbi
ArrayExpress
ArrayTools
BAC
BCRANK
BGmix
BSgenome
BioMVCClass
Biobase
BiocCaseStudies
Biostrings
BiostringsCinterfaceDemo
BufferedMatrix
BufferedMatrixMethods
CALIB
CGHbase
CGHcall
CGHregions
CMA
CORREP
Category
CoCiteStats
DEDS
DFP
DNAcopy
DynDoc
EBImage
EBarrays
GEOmetadb
GEOquery
GGBase
GGexplorer
GGtools
GLAD
GOstats
GSEABase
GSEAlm
GeneMeta
GeneR
GeneRfold
GeneSelector
GeneSpring
GeneTraffic
GeneticsBase
GeneticsDesign
GeneticsPed
GenomeGraphs
GlobalAncova
GraphAT
GraphAlignment
HELP
HEM
Harshlight
Heatplus
HilbertCurveDisplay
HilbertVis
HilbertVisGUI
IRanges
ITALICS
Icens
KEGGSOAP
LBE
LMGene
LPE
LPEadj
MANOR
MCRestimate
MEDME
MLInterfaces
MVCClass
MantelCorr
MassSpecWavelet
MeasurementError.cor
MergeMaid
Mfuzz
MiPP
OCplus
OLIN
OLINgui
OrderedList
OutlierD
PCpheno
PGSEA
PLPE
PROcess
RBGL
RBioinf
RDocBook
RLMM
RMAGEML
ROC
RSNPper
RWebServices
RankProd
Ratlpow
RbcBook1
Rdbi
RdbiPgSQL
Rdisop
RefPlus
Resourcerer
Rgraphviz
Ringo
Rintact
RpsiXML
Rredland
Rrsat
Rswub
Rtreemix
Ruuid
SAGx
SBMLR
SIM
SLGI
SLqPCR
SMAP
SNPchip
ScISI
SemSim
ShortRead
TypeInfo
VanillaICE
XDE
aCGH
adSplit
affxparser
affy
affyContam
affyMvout
affyPLM
affyPara
affyQCReport
affycomp
affycoretools
affyio
affylmGUI
affypdnn
altcdfenvs
annaffy
annotate
annotationTools
apComplex
aroma.light
arrayMagic
arrayMvout
arrayQuality
arrayQualityMetrics
beadarray
beadarraySNP
bgafun
bgx
bioDist
biocGraph
biocViews
biomaRt
bridge
buildBioC
cellHTS
cellHTS2
cghMCR
chipseq
clusterStab
codelink
convert
copa
cosmo
cosmoGUI
ctc
daMA
diffGeneAnalysis
domainsignatures
dualKS
ecolitk
edd
edgeR
exonmap
explorase
externalVector
factDesign
fbat
fdrame
flowClust
flowCore
flowDB
flowQ
flowUtils
flowViz
gaga
gaggle
gcrma
genArise
geneRecommender
genefilter
geneplotter
globaltest
goCluster
goProfiles
goTools
gpls
graph
hexbin
hopach
hypergraph
idiogram
impute
iterativeBMA
iterativeBMAsurv
keggorth
lapmix
limma
limmaGUI
logicFS
logitT
lumi
maCorrPlot
maDB
maSigPro
maanova
macat
made4
maigesPack
makePlatformDesign
makecdfenv
marray
matchprobes
mdqc
metaArray
miRNApath
microRNA
minet
multiscan
multtest
ncdfExts
nem
nnNorm
nudge
occugene
oligo
oligoClasses
oneChannelGUI
ontoTools
pairseqsim
pamr
panp
parody
pathRender
pcaMethods
pcot2
pdInfoBuilder
pdmclass
pgUtils
pickgene
pkgDepTools
plateCore
plgem
plier
plw
ppiStats
prada
preprocessCore
prism
puma
quantsmooth
qvalue
rHVDM
rama
rbsurv
reb
rflowcyt
rhdf5
rsbml
rtracklayer
safe
sagenhaft
seqLogo
sigPathway
siggenes
simpleaffy
simulatorAPMS
sizepower
smoothMiner
snapCGH
snpMatrix
spikeLI
spkTools
splicegear
splots
spotSegmentation
sscore
ssize
stam
stepNorm
tilingArray
timecourse
tkWidgets
topGO
twilight
vbmp
vsn
weaver
webbioc
widgetInvoke
widgetTools
xcms
xcmsGUI
xps
yaqcaffy

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beadarray
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/beadarray] permanent link

tkWidgets
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/tkWidgets] permanent link

matchprobes
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/matchprobes] permanent link

LMGene
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/LMGene] permanent link

externalVector
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/externalVector] permanent link

ScISI
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/ScISI] permanent link

siggenes
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/siggenes] permanent link

AnnotationDbi
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.
Fixed mget(c("GO:0018075","GO:0018075"),GOTERM) bug (the problem was in the .toListOfLists() function which was affecting the "as.list" method for GOTermsAnnDbBimap objects). Version bump.

[/AnnotationDbi] permanent link

GGtools
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/GGtools] permanent link

bgafun
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/bgafun] permanent link

RWebServices
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/RWebServices] permanent link

safe
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/safe] permanent link

flowClust
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/flowClust] permanent link

MLInterfaces
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/MLInterfaces] permanent link

flowViz
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.
fixed bug in gate plotting methods

[/flowViz] permanent link

factDesign
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/factDesign] permanent link

puma
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/puma] permanent link

cellHTS
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/cellHTS] permanent link

genArise
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/genArise] permanent link

affyPLM
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/affyPLM] permanent link

BioMVCClass
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/BioMVCClass] permanent link

rsbml
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/rsbml] permanent link

qvalue
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/qvalue] permanent link

oligoClasses
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/oligoClasses] permanent link

spotSegmentation
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/spotSegmentation] permanent link

arrayQuality
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/arrayQuality] permanent link

MantelCorr
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/MantelCorr] permanent link

nnNorm
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/nnNorm] permanent link

BufferedMatrix
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/BufferedMatrix] permanent link

RankProd
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/RankProd] permanent link

GeneR
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/GeneR] permanent link

widgetTools
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/widgetTools] permanent link

pcaMethods
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/pcaMethods] permanent link

GEOmetadb
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/GEOmetadb] permanent link

goProfiles
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/goProfiles] permanent link

affyPara
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/affyPara] permanent link

Rdbi
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/Rdbi] permanent link

GGBase
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/GGBase] permanent link

topGO
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/topGO] permanent link

rama
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/rama] permanent link

GeneSelector
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/GeneSelector] permanent link

cghMCR
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/cghMCR] permanent link

annaffy
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/annaffy] permanent link

EBImage
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/EBImage] permanent link

beadarraySNP
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/beadarraySNP] permanent link

pickgene
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/pickgene] permanent link

GSEABase
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/GSEABase] permanent link

pcot2
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/pcot2] permanent link

sagenhaft
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/sagenhaft] permanent link

occugene
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/occugene] permanent link

biocGraph
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/biocGraph] permanent link

DynDoc
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/DynDoc] permanent link

bioDist
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/bioDist] permanent link

DNAcopy
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/DNAcopy] permanent link

affylmGUI
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/affylmGUI] permanent link

maDB
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/maDB] permanent link

affycomp
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/affycomp] permanent link

multtest
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/multtest] permanent link

gaga
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/gaga] permanent link

limma
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/limma] permanent link

hexbin
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/hexbin] permanent link

twilight
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/twilight] permanent link

flowCore
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.
Deepayans suggestions and Application section

[/flowCore] permanent link

pdInfoBuilder
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/pdInfoBuilder] permanent link

Rdisop
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/Rdisop] permanent link

SMAP
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/SMAP] permanent link

OCplus
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/OCplus] permanent link

aCGH
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/aCGH] permanent link

stepNorm
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/stepNorm] permanent link

nem
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/nem] permanent link

affycoretools
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/affycoretools] permanent link

lapmix
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/lapmix] permanent link

GeneTraffic
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/GeneTraffic] permanent link

RBioinf
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/RBioinf] permanent link

mdqc
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/mdqc] permanent link

RdbiPgSQL
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/RdbiPgSQL] permanent link

ctc
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/ctc] permanent link

altcdfenvs
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/altcdfenvs] permanent link

RMAGEML
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/RMAGEML] permanent link

RBGL
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/RBGL] permanent link

ACME
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/ACME] permanent link

GeneSpring
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/GeneSpring] permanent link

bridge
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/bridge] permanent link

RSNPper
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/RSNPper] permanent link

edd
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/edd] permanent link

sizepower
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/sizepower] permanent link

OutlierD
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/OutlierD] permanent link

annotationTools
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/annotationTools] permanent link

TypeInfo
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/TypeInfo] permanent link

genefilter
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/genefilter] permanent link

geneRecommender
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/geneRecommender] permanent link

affypdnn
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/affypdnn] permanent link

gaggle
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/gaggle] permanent link

Rredland
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/Rredland] permanent link

MiPP
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/MiPP] permanent link

snapCGH
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/snapCGH] permanent link

makecdfenv
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/makecdfenv] permanent link

pamr
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/pamr] permanent link

hypergraph
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/hypergraph] permanent link

gcrma
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/gcrma] permanent link

BCRANK
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/BCRANK] permanent link

logicFS
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/logicFS] permanent link

cellHTS2
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/cellHTS2] permanent link

CoCiteStats
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/CoCiteStats] permanent link

impute
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/impute] permanent link

Biostrings
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.
Fixed a typo in man file.
Fixed the definition of XStringAlign class.
Set default for readFASTA() 'strip.desc' arg to TRUE (with a warning if the arg is missing).

[/Biostrings] permanent link

clusterStab
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/clusterStab] permanent link

macat
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/macat] permanent link

plier
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/plier] permanent link

MassSpecWavelet
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/MassSpecWavelet] permanent link

panp
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Updating the version number for the BioC 2.2 release.

[/panp] permanent link

adSplit
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Updating the version number for the BioC 2.2 release.

[/adSplit] permanent link

Ruuid
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/Ruuid] permanent link

GeneRfold
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/GeneRfold] permanent link

copa
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/copa] permanent link

Rintact
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/Rintact] permanent link

Ringo
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/Ringo] permanent link

fbat
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/fbat] permanent link

MergeMaid
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/MergeMaid] permanent link

GLAD
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/GLAD] permanent link

codelink
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/codelink] permanent link

SAGx
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Updating the version number for the BioC 2.2 release.

[/SAGx] permanent link

maanova
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Updating the version number for the BioC 2.2 release.

[/maanova] permanent link

splicegear
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Updating the version number for the BioC 2.2 release.

[/splicegear] permanent link

MVCClass
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Updating the version number for the BioC 2.2 release.

[/MVCClass] permanent link

CALIB
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/CALIB] permanent link

GeneMeta
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Updating the version number for the BioC 2.2 release.

[/GeneMeta] permanent link

RbcBook1
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Updating the version number for the BioC 2.2 release.

[/RbcBook1] permanent link

limmaGUI
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/limmaGUI] permanent link

GeneticsDesign
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/GeneticsDesign] permanent link

snpMatrix
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/snpMatrix] permanent link

goTools
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/goTools] permanent link

Resourcerer
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/Resourcerer] permanent link

tilingArray
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/tilingArray] permanent link

weaver
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/weaver] permanent link

hopach
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/hopach] permanent link

EBarrays
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/EBarrays] permanent link

RLMM
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/RLMM] permanent link

sscore
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/sscore] permanent link

SBMLR
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/SBMLR] permanent link

BAC
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/BAC] permanent link

LPE
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/LPE] permanent link

flowUtils
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/flowUtils] permanent link

GraphAT
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/GraphAT] permanent link

BufferedMatrixMethods
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/BufferedMatrixMethods] permanent link

maigesPack
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/maigesPack] permanent link

Icens
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/Icens] permanent link

ecolitk
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/ecolitk] permanent link

Mfuzz
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/Mfuzz] permanent link

vsn
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/vsn] permanent link

pgUtils
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/pgUtils] permanent link

KEGGSOAP
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/KEGGSOAP] permanent link

nudge
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/nudge] permanent link

GeneticsPed
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/GeneticsPed] permanent link

GenomeGraphs
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/GenomeGraphs] permanent link

BGmix
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/BGmix] permanent link

ontoTools
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/ontoTools] permanent link

flowQ
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/flowQ] permanent link

GEOquery
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/GEOquery] permanent link

cosmo
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/cosmo] permanent link

AffyCompatible
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/AffyCompatible] permanent link

affy
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/affy] permanent link

gpls
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/gpls] permanent link

OrderedList
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/OrderedList] permanent link

quantsmooth
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/quantsmooth] permanent link

BSgenome
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.
added missing doc

[/BSgenome] permanent link

cosmoGUI
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/cosmoGUI] permanent link

PCpheno
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/PCpheno] permanent link

annotate
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/annotate] permanent link

simulatorAPMS
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/simulatorAPMS] permanent link

affxparser
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/affxparser] permanent link

keggorth
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/keggorth] permanent link

maCorrPlot
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/maCorrPlot] permanent link

explorase
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.
Bump version to 1.3.8.
Fix limma interface for designs with factors with levels not represented
by a factor value.

[/explorase] permanent link

Heatplus
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/Heatplus] permanent link

CORREP
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/CORREP] permanent link

OLINgui
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/OLINgui] permanent link

plw
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/plw] permanent link

rHVDM
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/rHVDM] permanent link

DEDS
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/DEDS] permanent link

LBE
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/LBE] permanent link

GSEAlm
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/GSEAlm] permanent link

ABarray
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/ABarray] permanent link

MANOR
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/MANOR] permanent link

PROcess
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/PROcess] permanent link

AffyExpress
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/AffyExpress] permanent link

RefPlus
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/RefPlus] permanent link

fdrame
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/fdrame] permanent link

convert
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/convert] permanent link

oneChannelGUI
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/oneChannelGUI] permanent link

bgx
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/bgx] permanent link

rflowcyt
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/rflowcyt] permanent link

pathRender
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/pathRender] permanent link

yaqcaffy
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/yaqcaffy] permanent link

SemSim
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/SemSim] permanent link

xps
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/xps] permanent link

affyQCReport
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/affyQCReport] permanent link

pdmclass
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/pdmclass] permanent link

maSigPro
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/maSigPro] permanent link

plgem
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/plgem] permanent link

lumi
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/lumi] permanent link

timecourse
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/timecourse] permanent link

PGSEA
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/PGSEA] permanent link

CGHcall
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/CGHcall] permanent link

Rtreemix
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/Rtreemix] permanent link

Category
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/Category] permanent link

AnnBuilder
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/AnnBuilder] permanent link

prada
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/prada] permanent link

geneplotter
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/geneplotter] permanent link

sigPathway
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/sigPathway] permanent link

OLIN
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/OLIN] permanent link

Harshlight
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/Harshlight] permanent link

HEM
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/HEM] permanent link

widgetInvoke
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/widgetInvoke] permanent link

spikeLI
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/spikeLI] permanent link

pkgDepTools
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/pkgDepTools] permanent link

marray
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/marray] permanent link

SNPchip
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/SNPchip] permanent link

splots
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/splots] permanent link

seqLogo
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/seqLogo] permanent link

xcms
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.
Revert yesterdays change, and bring back 1.11.20 with a version bump

[/xcms] permanent link

XDE
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/XDE] permanent link

exonmap
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.
bumped version number

[/exonmap] permanent link

diffGeneAnalysis
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/diffGeneAnalysis] permanent link

ssize
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/ssize] permanent link

biocViews
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/biocViews] permanent link

VanillaICE
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/VanillaICE] permanent link

vbmp
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/vbmp] permanent link

affyio
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/affyio] permanent link

simpleaffy
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.
Fixed the version number of simpleaffy package.
bumped version number

[/simpleaffy] permanent link

GOstats
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/GOstats] permanent link

biomaRt
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/biomaRt] permanent link

stam
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.
M DESCRIPTION
Makefile is no longer necessary
M doc/tr_2004_03.pdf
D doc/Makefile

[/stam] permanent link

daMA
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/daMA] permanent link

rtracklayer
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/rtracklayer] permanent link

MeasurementError.cor
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/MeasurementError.cor] permanent link

aroma.light
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/aroma.light] permanent link

rbsurv
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/rbsurv] permanent link

ROC
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/ROC] permanent link

makePlatformDesign
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/makePlatformDesign] permanent link

idiogram
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/idiogram] permanent link

graph
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/graph] permanent link

reb
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/reb] permanent link

ppiStats
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/ppiStats] permanent link

metaArray
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/metaArray] permanent link

made4
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/made4] permanent link

apComplex
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/apComplex] permanent link

Rgraphviz
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/Rgraphviz] permanent link

arrayQualityMetrics
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/arrayQualityMetrics] permanent link

preprocessCore
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/preprocessCore] permanent link

BiocCaseStudies
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/BiocCaseStudies] permanent link

GraphAlignment
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/GraphAlignment] permanent link

SLqPCR
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/SLqPCR] permanent link

SLGI
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/SLGI] permanent link

Biobase
Updating biocReposList for BioC 2.3.
Updating the version number for the trunk post-BioC 2.2 release.
Updating the version number for the BioC 2.2 release.

[/Biobase] permanent link