Package	Download_score
ABarray	51
ACME	67
AffyCompatible	41
AffyExpress	3
AffyTiling	2
Agi4x44PreProcess	3
AgiMicroRna	130
AnnBuilder	1
AnnotationDbi	35249
ArrayExpress	397
ArrayTools	8
BAC	44
BCRANK	52
BGmix	51
BSgenome	11086
BUS	42
BeadExplorer	1
BicARE	86
BioMVCClass	41
BioSeqClass	6
Biobase	44256
BiocCaseStudies	3
Biostrings	40562
BiostringsCinterfaceDemo	0
BufferedMatrix	62
BufferedMatrixMethods	43
CALIB	3
CAMERA	419
CGHbase	351
CGHcall	322
CGHnormaliter	51
CGHregions	55
CMA	103
CNTools	85
CNVtools	3
CORREP	58
Category	1769
ChIPpeakAnno	836
ChIPseqR	71
ChIPsim	72
ChemmineR	809
ChromHeatMap	56
ChromoViz	1
CoCiteStats	35
DAVIDQuery	3
DEDS	3
DEGseq	164
DFP	35
DNAcopy	4590
DynDoc	1077
EBImage	2343
EBarrays	130
GEOmetadb	177
GEOquery	8261
GGBase	8
GGtools	6
GLAD	210
GOSemSim	13434
GOstats	1628
GSEABase	7591
GSEAlm	61
GeneAnswers	18
GeneMeta	59
GeneR	2
GeneRegionScan	42
GeneRfold	1
GeneSelectMMD	51
GeneSelector	3
GeneSpring	2
GeneTS	1
GeneTraffic	1
GeneticsBase	1
GeneticsDesign	3
GeneticsPed	96
GenomeBase	1
GenomeGraphs	8
GenomicFeatures	16736
Genominator	3
GlobalAncova	710
GraphAT	39
GraphAlignment	58
HELP	39
HEM	39
HTqPCR	134
Harshlight	39
Heatplus	335
HilbertVis	145
HilbertVisGUI	24
IRanges	47025
ITALICS	42
Icens	279
KCsmart	40
KEGGSOAP	2
KEGGgraph	5011
LBE	263
LMGene	3
LPE	60
LPEadj	37
LiquidAssociation	42
MANOR	40
MCRestimate	2
MEDME	41
MLInterfaces	235
MVCClass	56
MantelCorr	45
MassSpecWavelet	1508
MeasurementError.cor	47
MergeMaid	5
Mfuzz	900
MiChip	34
MiPP	40
OCplus	71
OLIN	43
OLINgui	37
OrderedList	75
OutlierD	3
PAnnBuilder	2
PCpheno	2
PGSEA	31
PLPE	39
PROcess	81
RBGL	9010
RBioinf	49
RLMM	52
RMAGEML	1
RMAPPER	2
RNAither	2
ROC	1024
RPA	37
RSNPper	1
RTCA	40
RTools4TB	1
RWebServices	1
RankProd	224
RbcBook1	90
Rdbi	2
RdbiPgSQL	1
Rdisop	458
RefPlus	52
Resourcerer	2
Rgraphviz	9100
Ringo	328
Rintact	1
Rmagpie	39
RmiR	3
Rolexa	2
RpsiXML	12
Rredland	1
Rtreemix	42
Ruuid	2
SAGElyzer	1
SAGx	9
SBMLR	59
SIM	42
SJava	2
SLGI	3
SLqPCR	55
SMAP	50
SNAData	1
SNPchip	12
SPIA	477
SSPA	72
ScISI	3
SemSim	1
ShortRead	5611
SpeCond	60
Starr	3
TargetSearch	60
TypeInfo	47
VanillaICE	71
XDE	40
aCGH	120
adSplit	45
affxparser	1422
affy	7719
affyContam	45
affyPLM	1426
affyPara	4
affyQCReport	9
affycomp	64
affycoretools	345
affydata	1
affyio	7668
affylmGUI	51
affypdnn	3
altcdfenvs	47
annaffy	209
annotate	20575
annotationTools	73
apComplex	45
applera	1
aroma.light	1722
arrayMagic	1
arrayMvout	40
arrayQCplot	1
arrayQuality	105
arrayQualityMetrics	523
baySeq	427
beadarray	658
beadarraySNP	49
betr	3
bgafun	2
bgx	45
bim	1
bioDist	188
biocDatasets	1
biocGraph	87
biocViews	3919
biomaRt	20584
bridge	22
cellHTS	2
cellHTS2	114
cghMCR	49
chipseq	525
clippda	40
clusterStab	70
codelink	52
convert	113
copa	40
cosmo	2
cosmoGUI	2
crlmm	118
ctc	262
cycle	39
daMA	57
ddCt	80
diffGeneAnalysis	46
domainsignatures	2
dualKS	2
dyebias	40
ecolitk	40
edd	2
edgeR	19752
eisa	4
exonmap	3
explorase	4
exprExternal	1
externalVector	2
factDesign	41
fbat	1
fdrame	55
flagme	42
flowClust	829
flowCore	2212
flowFP	74
flowFlowJo	3
flowMerge	59
flowQ	2
flowStats	650
flowUtils	60
flowViz	1009
gaga	50
gaggle	36
gcrma	1317
genArise	47
gene2pathway	2
geneRecommender	39
genefilter	15510
geneplotter	14028
genomeIntervals	110
gff3Plotter	1
globaltest	1467
goCluster	1
goProfiles	70
goTools	51
gpls	105
graph	17138
hexbin	7
hopach	201
hypergraph	72
iSNetwork	1
iSPlot	1
ideogram	0
idiogram	43
impute	9651
iterativeBMA	45
iterativeBMAsurv	51
keggorth	1
lapmix	37
limma	32593
limmaGUI	50
logicFS	79
logitT	39
lumi	1046
mBPCR	42
maCorrPlot	50
maDB	3
maSigPro	229
maanova	38
macat	46
made4	205
maigesPack	44
makePlatformDesign	1
makecdfenv	97
marray	1689
matchprobes	1
mdqc	59
metaArray	3
metahdep	52
methylumi	1302
miRNApath	58
microRNA	124
minet	542
mmgmos	1
msbase	0
multiscan	37
multtest	10557
nem	8
nnNorm	39
nudge	2
occugene	44
oligo	1471
oligoClasses	1478
oneChannelGUI	3
ontoTools	1
pairseqsim	1
pamr	3
panp	38
parody	58
pathRender	37
pcaMethods	4514
pcot2	4
pdInfoBuilder	90
pdmclass	2
pgUtils	2
pickgene	47
pkgDepTools	34
plateCore	2
plgem	58
plier	107
plw	2
ppiStats	7
prada	13
preprocessCore	13850
puma	79
qpcrNorm	40
qpgraph	115
quantsmooth	652
qvalue	14736
rHVDM	2
rMAT	4
rama	37
rbsurv	48
reb	3
reposTools	1
rfcdmin	1
rflowcyt	2
rsbml	82
rtracklayer	18016
safe	435
sagenhaft	35
seqLogo	2389
sigPathway	81
siggenes	2647
simpleaffy	120
simulatorAPMS	1
sizepower	56
snapCGH	51
snpMatrix	5
spikeLI	44
spkTools	34
splicegear	2
splots	132
spotSegmentation	2
sscore	39
ssize	83
stam	1
stepNorm	37
tilingArray	68
timecourse	52
tkWidgets	1051
topGO	2720
tspair	9
twilight	84
vbmp	60
vsn	4591
weaver	56
webbioc	43
widgetInvoke	1
widgetTools	1073
xcms	1357
xmapbridge	46
xps	5
y2hStat	1
yaqcaffy	4
ADaCGH2	48
BHC	99
BayesPeak	6
BeadDataPackR	671
BioNet	197
CGEN	66
CRImage	55
CSAR	72
CoGAPS	120
ConsensusClusterPlus	2678
DEGraph	40
DESeq	310
ExpressionView	2
GEOsubmission	37
GSRI	42
GeneGA	37
GenomicRanges	36279
HTSanalyzeR	3
IPPD	4
IsoGeneGUI	7
LVSmiRNA	2
MBCB	40
MEDIPS	95
MLP	68
MassArray	53
MotIV	30
Mulcom	65
NTW	48
NuPoP	62
OTUbase	38
PICS	70
PROMISE	42
PatientGeneSets	1
R453Plus1Toolbox	43
RCytoscape	6
RDRToolbox	96
Rsamtools	20044
SQUADD	45
SRAdb	342
SamSPECTRAL	88
TEQC	52
affyILM	43
attract	45
charm	4
coRNAi	3
fabia	122
farms	58
flowMeans	93
flowTrans	53
frma	95
frmaTools	44
gage	871
gaia	40
genoCN	54
genomes	61
girafe	76
goseq	1168
hyperdraw	54
iChip	36
iFlow	2
iSeq	52
imageHTS	29
keggorthology	72
les	57
methVisual	3
mscalib	0
netresponse	50
ontoCAT	4
phenoDist	2
pint	3
rGADEM	335
rnaSeqMap	3
segmentSeq	46
snpMatrix2	0
tiger	0
tigre	44
xmapcore	2
AGDEX	48
ASEB	58
AffyRNADegradation	45
AnnotationFuncs	5
ArrayExpressHTS	22
BiocGenerics	50773
BiocInstaller	649
Bioconductor	1
CNAnorm	47
CellNOptR	84
Clonality	43
Cormotif	37
DECIPHER	2221
DEXSeq	1286
DOSE	13972
DTA	62
DiffBind	1032
EDASeq	1556
ENVISIONQuery	2
ExiMiR	42
GEWIST	48
GOFunction	3
GRENITS	54
GSVA	4961
GWASTools	606
GeneExpressionSignature	47
IdMappingRetrieval	2
MSnbase	2730
MmPalateMiRNA	2
NCIgraph	42
NormqPCR	190
PAN	0
PREDA	72
RCASPAR	44
REDseq	65
RNAinteract	45
RTopper	36
RamiGO	5
ReQON	35
ReadqPCR	201
RedeR	231
Repitools	300
Rsubread	2226
Streamer	42
TDARACNE	19
TSSi	2
TurboNorm	37
VariantAnnotation	7750
Vega	2
a4	56
a4Base	85
a4Classif	57
a4Core	95
a4Preproc	109
a4Reporting	75
anota	51
biocLite	0
biovizBase	4903
chopsticks	86
clst	49
clstutils	49
clusterProfiler	13978
cn.farms	47
cn.mops	180
cqn	212
cummeRbund	222
dks	45
easyRNASeq	61
exomeCopy	205
fastseg	661
flowPhyto	1
flowPlots	42
flowType	3
flowWorkspace	1166
genefu	336
genoset	12
ggbio	1951
graphite	2475
htSeqTools	5
ibh	56
inSilicoDb	6
inveRsion	10
iontree	2
isobar	69
joda	2
lol	2
mcaGUI	3
mgsa	104
minfi	1995
mosaics	102
mzR	2744
ncdfFlow	1117
nucleR	57
pcaGoPromoter	5
phenoTest	66
predictionet	3
procoil	39
pvac	37
qrqc	61
qtbase	0
qtpaint	0
r3Cseq	76
randPack	40
rhdf5	17220
rqubic	58
seqbias	47
sigaR	4
snm	130
snpAssoc	0
snpStats	1854
spade	4
stepwiseCM	2
survcomp	858
sva	6275
trigger	39
tweeDEseq	85
virtualArray	3
zlibbioc	43364
AnnotationForge	2470
BRAIN	90
BigMatrix	0
BiocParallel	42741
BitSeq	34
BrainStars	2
CNORdt	42
CNORfuzzy	43
CNORode	66
CancerMutationAnalysis	3
ChIPXpress	51
CorMut	4
DART	61
DBChIP	5
DDiGGER	0
DSS	1055
DeconRNASeq	179
DirichletMultinomial	3000
DriverNet	57
EBcoexpress	56
EasyqpcR	4
FunciSNP	3
GeneGroupAnalysis	2
GeneNetworkBuilder	53
GraphPAC	42
Gviz	3216
HMMcopy	277
HTSeqGenie	30
HiTC	123
HybridMTest	71
IdMappingAnalysis	2
KEGGprofile	12
MiRaGE	40
MinimumDistance	39
MotifDb	532
NOISeq	523
NarrowPeaks	3
OSAT	58
OrganismDbi	2870
PADOG	165
PANR	40
PING	40
PWMEnrich	82
QUALIFIER	2
QuasR	296
RGalaxy	4
RIPSeeker	17
RMassBank	73
RSVSim	45
Rbowtie	414
Rcade	33
RchyOptimyx	2
ReactomePA	1995
ReportingTools	692
Risa	47
SCAN.UPC	87
SNAGEE	52
TransView	40
UniProt.ws	333
VariantTools	93
VegaMC	41
agilp	99
annmap	46
bigmemoryExtras	4
birta	6
bsseq	1217
bumphunter	2303
cancerclass	59
categoryCompare	42
cellGrowth	3
chroGPS	2
cnvGSA	40
coGPS	53
ddgraph	2
deepSNV	95
ensemblVEP	105
ffpe	50
flowPeaks	123
flowQB	1
fmcsR	181
gCMAP	4
gmapR	66
gprege	8
gwascat	434
hapFabia	38
hpar	228
iASeq	49
iBBiG	88
iBMQ	29
iPAC	46
illuminaio	2579
inSilicoMerging	8
lmdme	44
manta	4
maskBAD	39
matchBox	46
methyAnalysis	9
motifRG	4
motifStack	600
networkBMA	15
pRoloc	197
phyloseq	4704
plrs	2
pvca	212
rSFFreader	2
rTANDEM	5
rols	274
staRank	35
synapter	55
ternarynet	37
triform	2
wateRmelon	699
waveTiling	2
ARRmNormalization	51
ASSET	84
AllelicImbalance	64
AnnotationHub	8708
ArrayTV	4
BADER	69
BAGS	42
BaseSpaceR	59
BiGGR	44
BiRewire	101
BiSeq	64
BiocStyle	5881
BuxcoR	0
CAGEr	102
CNORfeeder	45
CNVrd2	37
CRISPRseek	93
CSSP	58
CexoR	38
ChAMP	568
ChemmineOB	270
DASiR	2
DESeq2	18790
DNaseR	1
DrugVsDisease	46
EBSeq	359
FGNet	73
GENE.E	3
GOSim	122
GOTHiC	61
GenomicAlignments	20605
HCsnip	1
HTSFilter	171
KEGGREST	31678
MMDiff	2
MSstats	407
Matrix	105
MethylSeekR	128
MineICA	51
NetSAM	45
OmicCircos	169
PAPi	4
PECA	46
PSICQUIC	12
PathNet	58
PhenStat	41
ProCoNA	1
RDAVIDWebService	33
RNASeqPower	121
ROntoTools	97
RRHO	100
RTN	112
Rchemcpp	2
Roleswitch	3
SANTA	57
SPEM	51
STRINGdb	865
SeqArray	735
SeqGSEA	63
SeqVarTools	421
SigFuge	37
SimBindProfiles	38
SomatiCA	1
SpacePAC	39
SplicingGraphs	65
SwimR	2
TCC	195
TFBSTools	1957
TargetScore	56
XVector	42293
ampliQueso	1
antiProfiles	59
arrayqualitymetrics	0
bioassayR	51
biomvRCNS	26
biostrings	0
casper	41
ccrepe	89
chimera	3
chipenrich	94
cisPath	55
cleanUpdTSeq	46
cleaver	157
clipper	79
clonotypeR	14
clusterprofiler	1
cobindR	2
copynumber	306
customProDB	57
dagLogo	51
deltaGseg	48
dexus	3
eiR	40
epigenomix	40
epivizr	51
exomePeak	9
flipflop	2
flowBeads	38
flowBin	41
flowFit	4
flowMap	53
flowMatch	40
gCMAPWeb	3
geNetClassifier	84
geneRxCluster	41
h5vc	58
harshlight	0
intansv	46
interactiveDisplay	76
jmosaics	1
lpNet	46
maPredictDSC	39
metaR	0
metaSeq	51
metagenomeSeq	1207
methylMnM	40
mitoODE	2
mmnet	1
msmsEDA	176
msmsTests	166
mzID	2505
neaGUI	1
omicade4	96
openCyto	751
paircompviz	41
pathifier	142
pathview	4131
piano	324
plethy	27
prebs	41
prot2D	2
proteinProfiles	46
qcmetrics	45
qusage	336
rBiopaxParser	148
rTRM	50
rTRMui	39
rfPred	44
roar	43
sRAP	4
sSeq	123
seqCNA	58
shinyTANDEM	2
shortread	0
spliceR	7
spliceSites	3
supraHex	345
tRanslatome	46
trio	78
triplex	41
vtpnet	38
ABSSeq	80
AIMS	346
ALDEx2	912
ASGSCA	60
ASSIGN	65
AnalysisPageServer	2
AtlasRDF	1
BEAT	39
Basic4Cseq	45
BiocCheck	1441
Biocinstaller	0
BridgeDbR	71
CAFE	42
CFAssay	57
CNEr	1962
COHCAP	61
COMPASS	59
COPDSexualDimorphism	1
COSNet	60
ChIPQC	345
ChIPseeker	1766
ClassifyR	90
Clomial	50
CoRegNet	64
CompGO	3
CopyNumber450k	1
CoverageView	55
DEGreport	449
DMRcate	776
DMRforPairs	39
DOQTL	3
DupChecker	2
EBSeqHMM	55
EDDA	2
ELBOW	3
EnrichmentBrowser	353
FEM	25
FRGEpistasis	49
FlowSOM	904
FourCSeq	4
GOexpress	85
GOsummaries	58
GSAR	102
GSCA	43
GSReg	41
GeneOverlap	275
GenoView	1
GenomeInfoDb	48693
GenomicFiles	956
GenomicInteractions	249
GenomicTuples	40
HDTD	54
IMPCdata	49
INPower	54
IdeoViz	56
M3D	3
MAIT	54
MBASED	46
MBAmethyl	46
MEIGOR	54
MGFM	39
MIMOSA	40
MLSeq	101
MPFE	46
MSGFgui	4
MSGFplus	9
MSnID	149
MeSHDbi	175
Metab	42
MethylAid	51
MethylMix	102
Mirsynergy	2
MoPS	2
MultiMed	54
NGScopy	1
NetPathMiner	61
OncoSimulR	50
PAA	49
PROPER	73
PSEA	41
Pbase	1
Polyfit	2
Pviz	53
QDNAseq	310
QuartPAC	43
RConferoMapping	0
RGSEA	57
RUVSeq	849
RUVnormalize	49
Rariant	2
Rcpi	106
RefNet	1
Rnits	24
Rqc	221
S4Vectors	48699
SGSeq	239
SNPRelate	1362
STAN	28
STATegRa	45
SemDist	40
Seqnames	0
SigCheck	37
SomaticSignatures	137
Sushi	92
TRONCO	55
TSCAN	430
TitanCNA	61
ToPASeq	3
UNDO	51
VariantFiltering	51
a4reporting	0
affyqcreport	0
agimicrorna	0
alsace	6
annotationdbi	1
apcluster	1
apcomplex	0
arraymvout	0
asmn	1
ballgown	558
beaddatapackr	0
biobase	1
biocinstaller	1
bionet	0
biosvd	2
blima	41
chemminer	0
cnanorm	0
cnvtools	0
compEpiTools	50
compcodeR	71
cosmiq	39
cpvSNP	42
csaw	373
cummerbund	1
derfinder	465
derfinderHelper	465
derfinderPlot	85
deseq	1
diffgeneanalysis	0
dyndoc	0
easyrnaseq	0
edger	1
erccdashboard	53
exonfindR	0
facopy	1
fastLiquidAssociation	42
flowCHIC	38
flowCL	22
flowClean	203
flowCyBar	50
flowDensity	175
flowcatchR	38
flowq	0
flowworkspace	0
focalCall	2
gQTLBase	5
gQTLstats	5
gaucho	1
geecc	2
genomation	556
genomeinfodb	0
genomeintervals	0
genomicalignments	0
gespeR	54
goprofiles	0
gosemsim	0
gostats	1
gotools	0
groHMM	52
gseabase	0
hiAnnotator	61
hiReadsProcessor	46
htseqtools	0
iClusterPlus	301
insilicomerging	0
interactiveDisplayBase	8447
inversion	0
iterativebma	0
kebabs	97
mQTL.NMR	1
madb	0
massarray	0
massiR	41
mdgsa	6
mergemaid	0
meshr	82
messina	52
metaMS	93
metaarray	0
metabomxtr	40
metagene	50
metaseqR	5
methylPipe	57
mfuzz	0
miRNAtap	99
missMethyl	948
monocle	2654
msQC	0
mvGST	1
mygene	342
netbiov	54
nethet	44
nondetects	60
npGSEA	47
nucler	0
omiccircos	0
oposSOM	55
pRolocGUI	69
paxtoolsr	88
pepStat	41
pepXMLTab	57
polyester	111
proBAMr	40
proteoQC	2
pxr	0
quantro	243
rRDP	44
rain	71
ramigo	0
rbioinf	0
regionReport	94
rgsepd	38
riboSeq	0
riboSeqR	34
rmir	0
rnaither	0
rpx	243
sangerseqR	535
sapFinder	2
saps	1
savR	56
scsR	1
seqTools	97
seqplots	7
shinyMethyl	74
simulatorZ	2
specL	57
ssviz	47
switchBox	92
systemPipeR	1108
targetsearch	0
tdaracne	0
topicmodels	1
trackViewer	328
tracktables	134
unifiedWMWqPCR	38
viper	618
wavClusteR	42
xvector	0
ABAEnrichment	6
AnnotationHubData	223
BBCAnalyzer	39
BEclear	62
BioQC	102
BrowserViz	119
BrowserVizDemo	1
BubbleTree	44
CAnD	10
CNPBayes	2
CNVPanelizer	51
CODEX	67
Cardinal	122
CausalR	62
ChIPComp	46
ComplexHeatmap	11740
CopywriteR	41
DAPAR	90
DChIPRep	2
DMRcaller	66
DNABarcodes	142
DeMAND	54
DiffLogo	68
ELMER	191
EMDomics	59
ENCODExplorer	3
ENmix	156
EnrichedHeatmap	485
FISHalyseR	39
FamAgg	60
FindMyFriends	4
FlowRepositoryR	5
GENESIS	293
GEOsearch	2
GUIDEseq	50
GeneBreak	53
GoogleGenomics	1
GreyListChIP	809
Guitar	119
HIBAG	107
HilbertCurve	72
INSPEcT	50
IONiseR	53
IVAS	50
Imetagene	2
InPAS	40
LEA	450
LOLA	172
LedPred	48
LowMACA	23
MEAL	67
MatrixRider	37
MeSHSim	1
MethTargetedNGS	38
NanoStringDiff	88
NanoStringQCPro	68
OGSA	2
OmicsMarkeR	2
OperaMate	1
Oscope	52
PGA	4
Path2PPI	57
Prize	2
Prostar	61
ProtGenerics	9988
ProteomicsAnnotationHubData	2
R3CPET	38
R4RNA	547
RBM	40
RCy3	642
RCyjs	48
RNAprobR	2
RTCGA	502
RTCGAToolbox	587
RUVcorr	47
RareVariantVis	39
Rhtslib	20200
RiboProfiling	58
RnBeads	194
RnaSeqSampleSize	84
SELEX	40
SEPA	2
SICtools	32
SIMAT	36
SISPA	42
SNPhood	37
SVM2CRM	1
SWATH2stats	49
SummarizedExperiment	34072
TCGAbiolinks	2910
TIN	41
TPP	73
TarSeqQC	26
TimerQuant	0
XBSeq	2
acde	69
bamsignals	998
biobroom	166
biomformat	4738
birte	1
caOmicsV	7
canceR	49
chromDraw	40
coMET	68
cogena	77
consensusSeekeR	87
conumee	128
cytofkit	18
dcGSA	39
destiny	673
diffHic	92
diggit	44
dupRadar	83
edge	90
ensembldb	8253
erma	66
eudysbiome	35
fCI	53
flowVS	80
gcatest	41
gdsfmt	1895
genotypeeval	27
ggtree	17279
globalSeq	54
gtrellis	99
hierGWAS	57
iCOBRA	139
iCheck	34
iGC	52
immunoClust	41
kimod	2
ldblock	50
lfa	305
lpsymphony	1204
mAPKL	26
metaX	2
metagenomeFeatures	2
miRLAB	43
miRcomp	37
mirIntegrator	38
mogsa	118
motifbreakR	101
msa	1313
mtbls2	0
multiClust	54
muscle	206
myvariant	60
netbenchmark	2
normalize450K	36
pandaR	86
parglms	39
pathVar	44
pmm	45
podkat	47
profileScoreDist	34
pwOmics	44
rCGH	63
rGREAT	592
rcellminer	55
regioneR	1852
rnaseqcomp	60
ropls	799
sbgr	1
scde	304
seq2pathway	48
seqPattern	561
sidap	0
sigsquared	38
similaRpeak	56
sincell	55
skewr	33
soGGi	283
subSeq	57
synlet	43
systemPipeRdata	0
transcriptR	46
traseR	39
variancePartition	611
AMOUNTAIN	69
ASAFE	54
ASpli	74
Anaquin	50
AneuFinder	74
BPRMeth	49
BUMHMM	37
BaalChIP	50
BadRegionFinder	42
BasicSTARRseq	49
BatchQC	100
BayesKnockdown	37
BgeeDB	76
BiocWorkflowTools	157
CCPROMISE	40
CHRONOS	47
CINdex	53
CONFESS	41
CVE	2
CancerInSilico	30
CancerSubtypes	183
CellMapper	41
Chicago	87
ClusterSignificance	52
CountClust	6
CrispRVariants	78
CytoML	633
DEFormats	221
DEsubs	44
DNAshapeR	67
DRIMSeq	336
DeepBlueR	47
DelayedArray	40046
Director	48
EBSEA	42
EGAD	52
EGSEA	144
EWCE	117
EmpiricalBrownsMethod	82
EpiCluster	0
ExperimentHub	5945
ExperimentHubData	185
ExpressionAtlas	108
FitHiC	65
FunChIP	43
GAprediction	52
GEM	55
GMRP	37
GOpro	52
GRmetrics	72
GRridge	32
GSALightning	57
GenRank	2
GenVisR	368
GeneGeneInteR	40
GenoGAM	2
Glimma	1157
HDF5Array	10244
Harman	137
HelloRanges	82
IHW	591
IPO	125
ISoLDE	52
IWTomics	38
ImmuneSpaceR	53
ImpulseDE	2
InteractionSet	1456
JunctionSeq	9
KEGGlincs	46
LINC	2
LOBSTAHS	48
Linnorm	137
LymphoSeq	56
M3Drop	444
MADSEQ	36
MAST	1772
MBttest	47
MGFR	39
MMDiff2	42
MODA	45
MWASTools	84
Mergeomics	59
MetCirc	42
MetaboSignal	86
MethPed	38
MoonlightR	44
MultiAssayExperiment	3541
MultiDataSet	798
MutationalPatterns	315
NetCRG	0
OncoScore	42
PCAN	45
PanVizGenerator	4
PathoStat	49
PharmacoGx	165
Pi	71
Pigengene	69
PureCN	133
QUBIC	113
QuaternaryProd	69
RCAS	51
RGraph2js	37
RImmPort	51
RJMCMCNucleosomes	37
ROTS	154
RnaSeqGeneEdgeRQL	1
SC3	419
SIMLR	208
SMITE	45
SNPediaR	44
SPLINTER	35
SRGnet	1
SVAPLSseq	2
SpidermiR	59
StarBioTrek	42
SwathXtend	62
TVTB	36
Uniquorn	37
YAPSA	60
alpine	71
anamiR	2
annotatr	400
bacon	86
bigmelon	45
bioCancer	53
biosigner	67
ccmap	66
cellTree	25
cellity	49
chimeraviz	76
chromPlot	69
chromstaR	76
clustComp	55
clusterExperiment	299
clusterSeq	28
contiBAIT	39
coseq	93
covEB	38
covRNA	39
crisprseekplus	36
crossmeta	69
ctsGE	45
dSimer	2
dada2	2100
debrowser	113
diffloop	47
doppelgangR	47
eegc	35
epivizrData	62
epivizrServer	86
epivizrStandalone	52
esetVis	60
fCCAC	38
fgsea	14126
flowAI	456
flowPloidy	42
gCrisprTools	44
garfield	57
gcapc	50
genbankr	168
geneAttribution	40
geneXtendeR	44
geneplast	68
genphen	9
ggcyto	923
iCARE	88
isomiRs	50
maftools	2474
matter	131
meshes	123
metaCCA	138
methylKit	542
miRNAmeConverter	46
msPurity	63
netprioR	48
normr	124
nucleoSim	43
odseq	56
oppar	39
pbcmc	2
pcaExplorer	364
philr	183
phosphonormalizer	42
pqsfinder	66
proFIA	25
psichomics	57
psygenet2r	43
qsea	56
rDGIdb	76
ramwas	67
readat	4
recount	380
recoup	40
regsplice	33
samExploreR	2
scDD	132
scater	5609
scone	85
scran	4128
sevenbridges	53
sights	44
signeR	63
sparseDOSSA	50
splineTCDiffExpr	1
splineTimeR	59
sscu	37
statTarget	91
switchde	43
synergyfinder	171
tofsims	3
treeio	17045
tximport	3179
uSORT	39
yamss	46
yarn	90
ANF	46
ATACseqQC	313
AUCell	1793
AnnotationFilter	8454
BASiCS	114
BLMA	47
BioCor	63
BioMedR	1
BiocFileCache	21941
BiocSklearn	50
CATALYST	373
CEMiTool	126
ChIPanalyser	40
ChIPexoQual	40
ClusterJudge	54
DASC	1
DEP	431
DMCHMM	39
DMRScan	37
DaMiRseq	56
DelayedMatrixStats	14226
Doscheda	37
EpiDISH	360
EventPointer	49
GA4GHclient	44
GA4GHshiny	36
GENIE3	971
GISPA	43
GOfuncR	210
GenomicDataCommons	1134
GenomicScores	444
HiCcompare	190
IMAS	42
ImpulseDE2	8
IntEREst	44
InterMineR	53
IntramiRExploreR	43
IrisSpatialFeatures	1
IsoformSwitchAnalyzeR	236
JASPAR2018	1
LineagePulse	39
Logolas	2
M3C	963
MAGeCKFlute	302
MCbiclust	39
MIGSA	23
MIRA	60
MSstatsQC	40
MaxContrastProjection	2
MetaCyto	47
MetaNeighbor	72
NADfinder	34
OPWeight	38
Onassis	2
Organism.dplyr	340
POST	2
PPInfer	70
PROPS	35
PathwaySplice	2
REMP	52
RITAN	45
RIVER	34
RProtoBufLib	2142
RTNduals	52
RTNsurvival	52
RVS	37
RaggedExperiment	875
Rbowtie2	282
Rhdf5lib	18432
SCnorm	85
SPONGE	72
STROMA4	34
Scale4C	38
SeqSQC	51
SingleCellExperiment	13189
TCGAbiolinksGUI	65
TCseq	115
TFARM	32
TFEA.ChIP	52
TFHAZ	33
TMixClust	52
TReNA	1
TSRchitect	4
TnT	40
amplican	60
anota2seq	54
apeglm	3065
banocc	54
basecallQC	50
bcSeq	44
beachmat	12679
biotmle	51
bnbc	41
branchpointer	59
cbaf	42
cellbaseR	55
cellscape	52
chromVAR	995
chromswitch	38
coexnet	20
consensusOV	55
cydar	67
cytolib	2280
diffuStats	55
discordant	68
epiNEM	55
epivizrChart	41
esATAC	79
exomecopy	0
flowTime	42
funtooNorm	37
geneClassifiers	38
gep2pep	44
goSTAG	44
heatmaps	244
hicrep	8
ideal	96
iterClust	43
ivygapSE	36
karyoploteR	801
loci2path	35
mapscape	46
metavizr	17
methInheritSim	45
methimpute	51
methylInheritance	51
methyvim	2
mfa	75
miRBaseConverter	152
miRmine	34
miRsponge	1
microbiome	1535
mimager	38
motifcounter	45
motifmatchr	1067
mpra	42
msgbsR	45
multiMiR	213
multiOmicsViz	43
ndexr	61
netReg	2
omicsPrint	41
oncomix	36
oneSENSE	23
ontoProc	106
openPrimeR	89
openPrimeRui	47
panelcn.mops	65
pathprint	2
pcxn	45
pgca	48
phenopath	81
progeny	327
restfulSE	63
rexposome	69
rhdf5client	59
rqt	38
runibic	63
sampleClassifier	42
scPipe	72
scfind	2
scmap	354
scoreInvHap	35
semisup	44
seqCAT	38
seqcombo	47
signet	2
slalom	43
splatter	356
stageR	178
swfdr	48
tenXplore	36
timescape	74
topdownr	45
transcriptogramer	50
trena	44
twoddpcr	39
vulcan	38
wiggleplotr	112
zFPKM	100
zinbwave	654
ACE	73
ADAM	49
ASICS	60
AffiXcan	45
AssessORF	44
BDMMAcorrect	47
BEARscc	38
BUScorrect	39
BiFET	43
BioNetStat	58
BiocNeighbors	8137
BiocOncoTK	57
BiocPkgTools	130
BiocVersion	50905
CAGEfightR	87
CAMTHC	2
CHARGE	2
COCOA	43
CTDquerier	41
CellScore	37
CellTrails	44
ChIC	33
ChIPSeqSpike	4
CytoDx	40
DEComplexDisease	25
DEScan2	41
DEqMS	198
DEsingle	255
DNABarcodeCompatibility	37
DelayedDataFrame	45
DominoEffect	37
DropletUtils	2370
ERSSA	41
EnhancedVolcano	3583
ExCluster	36
FCBF	67
FELLA	118
FastqCleaner	83
FoldGO	40
GARS	39
GDCRNATools	220
GDSArray	73
GIGSEA	52
GSEABenchmarkeR	58
GateFinder	41
GeneAccord	21
GeneStructureTools	59
HIREewas	53
HPAanalyze	111
HiCBricks	72
IMMAN	45
INDEED	49
InTAD	39
IsoCorrectoR	61
IsoCorrectoRGUI	41
KinSwingR	43
LRBaseDbi	47
LoomExperiment	433
MACPET	10
MDTS	43
MPRAnalyze	52
MSstatsQCgui	36
MSstatsTMT	209
MTseeker	1
MetID	43
MetNet	44
MetaGxOvarian	1
NBSplice	23
NeighborNet	31
NormalyzerDE	106
OMICsPCA	41
ORFik	161
OUTRIDER	145
OmaDB	100
PepsNMR	74
PowerExplorer	2
PrecisionTrialDrawer	7
ProteoMM	58
QSutils	41
REBET	37
RGMQL	26
RNASeqR	22
RNAdecay	43
RSeqAn	69
RandomWalkRestartMH	83
RcisTarget	925
Rgin	17
Rmmquant	39
SCBN	62
SDAMS	40
SEPIRA	30
SIAMCAT	103
SIMD	35
Sconify	33
SparseSignatures	47
SummarizedBenchmark	40
TCGAutils	711
TFutils	45
TTMap	34
TimeSeriesExperiment	12
TissueEnrich	91
Trendy	48
TxRegInfra	2
Ularcirc	38
VCFArray	38
Wrench	1188
XINA	40
abseqR	48
adaptest	2
appreci8R	51
artMS	60
bayNorm	71
brainImageR	1
breakpointR	51
cTRAP	47
ccfindR	74
celaref	62
cicero	200
coRdon	116
compartmap	41
condcomp	1
consensus	54
consensusDE	44
countsimQC	80
ddPCRclust	42
deco	25
decompTumor2Sig	69
decontam	1243
diffcoexp	69
diffcyt	223
dmrseq	121
drawProteins	142
enrichplot	14963
glmSparseNet	85
gpart	17
gsean	44
gwasurvivr	74
hierinf	47
hipathia	61
hmdbQuery	64
iCNV	40
iSEE	311
iasva	38
icetea	37
igvR	95
ipdDb	41
iteremoval	6
kissDE	36
kmknn	0
levi	46
mCSEA	77
martini	42
maser	98
mdp	55
methylGSA	99
miRSM	35
missRows	42
mixOmics	2879
mlm4omics	1
multiHiCcompare	107
netSmooth	50
nuCpos	50
omicRexposome	39
omicplotR	46
onlineFDR	50
perturbatr	2
phantasus	74
plotGrouper	52
plyranges	1016
pogos	42
powerTCR	336
primirTSS	42
qPLEXanalyzer	46
rScudo	38
rWikiPathways	319
roma	0
scFeatureFilter	47
scTensor	50
scmeth	50
scruff	48
seqsetvis	50
sesame	463
sevenC	38
sigFeature	157
singleCellTK	192
singscore	972
slingshot	1084
slinky	4
sparsenetgls	46
srnadiff	26
strandCheckR	41
tRNA	63
tRNAdbImport	45
tRNAscanImport	51
transite	40
tximeta	1039
universalmotif	418
vidger	89
ADAMgui	50
ALPS	3
AMARETTO	58
APAlyzer	55
ASpediaFI	24
AWFisher	47
AlphaBeta	43
Autotuner	3
BANDITS	62
BUSpaRse	182
BioMM	42
BioTIP	44
BiocSet	178
BiocSingular	10405
CHETAH	79
CNVRanger	73
CNVfilteR	46
CellBench	114
CellMixS	67
CluMSID	53
CoRegFlux	2
CopyNumberPlots	87
CrossICC	2
DEWSeq	47
DMCFB	37
DeMixT	73
DepecheR	376
DiscoRhythm	55
GAPGOM	7
GCSscore	41
GNET2	42
GenomicOZone	38
GladiaTOX	39
GmicR	49
HCABrowser	2
HCAExplorer	1
HiLDA	40
HumanTranscriptomeCompendium	45
IgGeneUsage	39
KnowSeq	43
LinkHD	38
MACSQuantifyR	45
MBQN	39
MEB	35
MMAPPR2	24
MMUPHin	85
MOFA	7
MOSim	37
MSstatsSampleSize	37
Maaslin2	621
Melissa	38
MetaVolcanoR	72
MethCP	19
Modstrings	82
NBAMSeq	40
OVESEG	36
OmicsLonDA	36
OmnipathR	381
PAIRADISE	75
PAST	40
PCAtools	1003
PERFect	49
PhyloProfile	51
PoTRA	13
PrInCE	41
Qtlizer	36
RCM	39
RNAmodR	56
RNAmodR.AlkAnilineSeq	40
RNAmodR.ML	33
RNAmodR.RiboMethSeq	37
RNAsense	34
Rcwl	44
RcwlPipelines	39
ReactomeGSA	202
RepViz	42
Rhisat2	164
SAIGEgds	54
SBGNview	85
SCANVIS	53
SEtools	77
SMAD	45
SQLDataFrame	38
SharedObject	58
SigsPack	36
SingleR	3059
Spaniel	64
SpatialCPie	69
SpectralTAD	73
Structstrings	68
StructuralVariantAnnotation	146
SubCellBarCode	42
SynMut	37
TNBC.CMS	40
TOAST	261
TPP2D	42
TreeSummarizedExperiment	1070
VariantExperiment	44
VennDetail	183
ViSEAGO	110
XCIR	2
Xeva	39
adductomicsR	48
alevinQC	77
animalcules	103
atSNP	50
batchelor	3203
bigPint	64
biscuiteer	46
blacksheepr	43
brainflowprobes	39
brendaDb	45
calm	51
ceRNAnetsim	46
celda	394
circRNAprofiler	54
cliqueMS	70
cola	121
cytofast	3
dcanr	81
debCAM	51
deltaCaptureC	39
divergence	35
doseR	38
enrichTF	61
epihet	20
evaluomeR	44
fcScan	38
fcoex	51
fishpond	341
flowSpecs	47
flowSpy	2
gemini	51
genetics	0
gpuMagic	42
gramm4R	2
graper	54
gscreend	42
hypeR	85
idr2d	45
infercnv	1034
lionessR	47
lipidr	113
mbkmeans	373
metagene2	56
methrix	64
methylCC	58
miRspongeR	52
microbiomeDASim	38
mitch	66
mnem	61
muscat	249
nanotatoR	44
ncGTW	34
netboost	34
netboxr	23
ngsReports	69
oppti	33
pathwayPCA	89
peakPantheR	45
phemd	28
pipeFrame	112
pram	35
proBatch	74
proDA	164
profileplyr	190
projectR	55
pulsedSilac	6
pwrEWAS	45
qckitfastq	53
qsmooth	56
rmelting	65
sRACIPE	46
scAlign	30
scBFA	39
scDblFinder	943
scGPS	44
scMerge	351
scPCA	70
scRecover	45
scTGIF	46
scds	459
schex	124
selectKSigs	33
signatureSearch	80
sitePath	41
sojourner	20
ssPATHS	33
ssrch	53
survtype	47
target	38
topconfects	152
tradeSeq	386
waddR	44
ADImpute	62
ANCOMBC	951
AlpsNMR	59
AnVIL	570
AnVILBilling	54
AnVILPublish	41
BRGenomics	139
BSgenome.Hsapiens.UCSC.hg19	5
BSgenome.Hsapiens.UCSC.hg38	7
BayesSpace	170
BgeeCall	43
BiocDockerManager	51
BiocIO	16006
BrainSABER	21
BumpyMatrix	316
CAEN	33
CARNIVAL	132
CNVgears	52
CSSQ	37
CeTF	61
CellaRepertorium	52
ChromSCape	52
CiteFuse	83
CoreGx	183
CytoTree	30
DAMEfinder	41
DEXICA	0
DIAlignR	48
DegNorm	48
Dune	37
EnMCB	31
EpiTxDb	48
ExperimentSubset	41
ExploreModelMatrix	114
FRASER	95
FScanR	45
FilterFFPE	37
GCSConnection	4
GCSFilesystem	9
GEOfastq	56
GGPA	46
GO.db	12
GPA	51
GSEAmining	66
GSgalgoR	49
GWAS.BAYES	54
GWENA	103
GeneTonic	118
GenomeInfoDbData	16
GenomicDistributions	77
HCAMatrixBrowser	2
HIPPO	37
HPAStainR	42
Herper	129
Homo.sapiens	5
ILoReg	42
ISAnalytics	48
Informeasure	48
KEGG.db	3
LACE	42
MEAT	38
MOFA2	326
MOGAMUN	40
MOMA	53
MSEADbi	1
MSPrep	46
MSstatsConvert	364
MSstatsPTM	113
MSstatsTMTPTM	1
MatrixGenerics	34875
MesKit	61
MethReg	57
MicrobiotaProcess	370
MouseFM	37
MsCoreUtils	2747
MultiBaC	49
NPARC	44
NanoMethViz	63
Nebulosa	798
NewWave	45
NoRCE	47
Omixer	49
OpenStats	51
PFAM.db	8
PFP	32
POMA	65
PeacoQC	129
PhosR	86
PloGO2	53
PoDCall	46
PubScore	7
QFeatures	611
RColorBrewer	6
RIPAT	34
RLassoCox	57
RNAAgeCalc	60
ROCpAI	35
ROSeq	34
RadioGx	40
ReactomeContentService4R	75
RegEnrich	57
ResidualMatrix	2975
Rfastp	124
Rtpca	35
SCATE	44
SCFA	37
SCOPE	46
SPsimSeq	60
SeqGate	33
SimFFPE	38
SingleCellSignalR	147
SpatialDecon	138
SpatialExperiment	934
Spectra	655
SplicingFactory	36
SynExtend	43
TADCompare	63
TAPseq	47
TBSignatureProfiler	47
TileDBArray	38
TimiRGeN	46
ToxicoGx	39
TreeAndLeaf	104
TxDb.Hsapiens.UCSC.hg19.knownGene	5
UMI4Cats	41
UTAR	0
VERSO	46
VarCon	38
VplotR	50
affio	0
aggregateBioVar	52
bambu	228
base	1
basilisk	2800
basilisk.utils	2636
bayseq	1
biobtreeR	55
biocthis	182
bitops	2
bluster	3728
bnem	37
brew	44
cBioPortalData	383
calib	0
category	1
censcyt	41
cfDNAPro	43
cindex	0
clustifyr	122
cmapR	309
cntools	1
combi	39
compiler	1
corral	61
ctgGEM	7
customCMPdb	40
cytomapper	191
dasper	40
datasets	1
dearseq	113
degraph	1
degseq	0
densvis	1739
dichromat	1
distinct	121
dittoSeq	824
dnacopy	1
dpeak	39
easyreporting	51
eisaR	85
escape	212
exomePeak2	92
facets	1
famat	39
flowCut	73
flowGraph	49
fmrs	83
frenchFISH	45
ga4ghclient	0
geneLenDataBase	7
genomicfeatures	1
geoquery	1
getDEE2	49
ggtreeExtra	828
glmGamPoi	2160
gmoviz	39
grDevices	1
graphat	1
graphics	1
grid	1
hgu133plus2.db	6
hicbricks	0
hummingbird	38
iSEEu	84
idpr	51
infinityFlow	46
labeling	2
lefser	338
logitt	1
magrittr	20
marr	35
megadepth	110
metabCombiner	41
metabolomicsWorkbenchR	55
metapod	3674
metaseqR2	39
methods	1
methylSig	55
microbiomeExplorer	56
mina	46
moanin	62
msImpute	52
multiGSEA	91
multicrispr	42
mumosa	55
musicatk	52
ncRNAtools	40
nearBynding	35
nempi	34
netDx	41
omicsmarker	0
optimalFlow	34
org.Hs.eg.db	12
packFinder	40
padma	40
pageRank	38
parallel	1
peco	32
periodicDNA	41
pga	0
pipeComp	40
pmp	104
preciseTAD	35
proActiv	51
prostar	0
rSWeeP	46
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rebook	198
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recount3	312
recountmethylation	41
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rhdf5filters	16800
ribor	38
ribosomeProfilingQC	55
rlang	102
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snifter	109
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stats	1
stats4	1
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tidybulk	142
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tools	1
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utils	1
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velociraptor	98
weitrix	37
wpm	44
zellkonverter	747
BOBaFIT	38
BSgenome.Hsapiens.NCBI.GRCh38	1
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CytoGLMM	51
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IlluminaHumanMethylation450kmanifest	4
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MACSr	81
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MatrixQCvis	60
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MsBackendMassbank	57
MsBackendMgf	395
MsBackendRawFileReader	39
MsFeatures	1236
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NanoStringNCTools	275
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ODER	29
ORFhunteR	40
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OSCA.advanced	19
OSCA.basic	22
OSCA.intro	116
OSCA.multisample	17
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PhenoGeneRanker	45
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RCSL	49
RLSeq	37
Rbec	39
ReactomeGraph4R	35
RiboCrypt	35
RiboDiPA	42
SCArray	43
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atena	57
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awst	48
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diffUTR	36
dir.expiry	2563
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memes	160
metapone	55
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mia	1042
miaSim	68
miaViz	177
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midasHLA	51
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mitoClone2	35
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mosbi	42
msqrob2	94
mulcom	0
multiSight	35
netOmics	40
netZooR	42
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orthogene	216
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pengls	33
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ptairMS	37
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synapsis	34
systemPipeTools	43
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tripr	50
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BSgenome.Hsapiens.1000genomes.hs37d5	1
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IlluminaHumanMethylationEPICanno.ilm10b2.hg19	4
IlluminaHumanMethylationEPICanno.ilm10b4.hg19	4
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