Package	Download_score
a4	142
a4Base	169
a4Classif	134
a4Core	181
a4Preproc	181
a4Reporting	136
ABAEnrichment	30
ABarray	132
abseqR	85
ABSSeq	155
acde	104
ACE	118
aCGH	232
ACME	137
ADaCGH2	122
ADAM	176
ADAMgui	115
adaptest	11
adductomicsR	83
ADImpute	95
adSplit	119
adverSCarial	60
AffiXcan	83
affxparser	1585
affy	7951
affycomp	136
AffyCompatible	58
affyContam	139
affycoretools	395
AffyExpress	47
affyILM	126
affyio	8050
affylmGUI	147
affyPara	48
affypdnn	45
affyPLM	1002
affyQCReport	52
AffyRNADegradation	106
AffyTiling	32
AGDEX	110
aggregateBioVar	92
Agi4x44PreProcess	16
agilp	125
AgiMicroRna	176
AHMassBank	73
AIMS	384
airpart	89
alabaster	71
alabaster.base	2419
alabaster.bumpy	81
alabaster.files	61
alabaster.mae	87
alabaster.matrix	2390
alabaster.ranges	2286
alabaster.sce	793
alabaster.schemas	2119
alabaster.se	2214
alabaster.spatial	85
alabaster.string	98
alabaster.vcf	90
ALDEx2	1175
alevinQC	108
AllelicImbalance	140
AlphaBeta	75
AlphaMissenseR	60
alpine	38
ALPS	9
AlpsNMR	91
alsace	33
altcdfenvs	144
AMARETTO	204
AMOUNTAIN	94
amplican	110
ampliQueso	29
AnalysisPageServer	23
anamiR	12
Anaquin	85
ANCOMBC	1193
AneuFinder	117
ANF	86
animalcules	236
annaffy	285
AnnBuilder	6
annmap	125
annotate	17404
AnnotationDbi	36034
AnnotationFilter	11024
AnnotationForge	2154
AnnotationFuncs	41
AnnotationHub	11397
AnnotationHubData	364
annotationTools	136
annotatr	470
anota	119
anota2seq	102
antiProfiles	101
AnVIL	533
AnVILAz	25
AnVILBase	59
AnVILBilling	68
AnVILGCP	24
AnVILPublish	79
AnVILWorkflow	64
APAlyzer	99
apComplex	117
apeglm	3631
APL	195
applera	2
appreci8R	88
aroma.light	1960
ArrayExpress	426
ArrayExpressHTS	42
arrayMagic	6
arrayMvout	108
arrayQCplot	2
arrayQuality	175
arrayQualityMetrics	460
ArrayTools	46
ArrayTV	36
ARRmNormalization	103
artMS	103
ASAFE	76
ASEB	97
ASGSCA	97
ASICS	116
asmn	5
ASpediaFI	15
ASpli	128
AssessORF	169
ASSET	129
ASSIGN	146
assorthead	2093
ASURAT	82
ATACCoGAPS	57
ATACseqQC	368
ATACseqTFEA	82
atena	107
AtlasRDF	21
atSNP	104
attract	126
AUCell	2500
autonomics	71
Autotuner	9
AWFisher	84
awst	73
BaalChIP	92
BAC	39
bacon	140
BADER	105
BadRegionFinder	84
BAGS	110
ballgown	604
bambu	280
bamsignals	1024
BANDITS	107
bandle	76
Banksy	134
banocc	103
barcodetrackR	75
basecallQC	94
BaseSpaceR	106
Basic4Cseq	108
BASiCS	155
BASiCStan	106
BasicSTARRseq	81
basilisk	3621
basilisk.utils	3367
batchelor	3961
BatchQC	130
BayesKnockdown	78
BayesPeak	38
BayesSpace	253
bayNorm	105
baySeq	462
BBCAnalyzer	97
BCRANK	122
bcSeq	81
BDMMAcorrect	32
beachmat	16083
beachmat.hdf5	118
beadarray	693
beadarraySNP	69
BeadDataPackR	572
BeadExplorer	4
BEARscc	74
BEAT	104
BEclear	105
beer	76
benchdamic	90
BERT	46
betaHMM	44
betr	37
bettr	43
BG2	67
bgafun	39
BgeeCall	69
BgeeDB	150
BGmix	33
bgx	112
BHC	91
BicARE	142
BiFET	85
BiGGR	107
bigmelon	95
bigmemoryExtras	36
bigPint	24
bim	3
BindingSiteFinder	77
bioassayR	114
Biobase	48822
biobroom	235
biobtreeR	68
bioCancer	102
BioCartaImage	62
BiocBaseUtils	6735
BiocBook	70
BiocCaseStudies	44
BiocCheck	1703
biocDatasets	8
BiocDockerManager	11
BiocFHIR	69
BiocFileCache	25968
BiocGenerics	57352
biocGraph	264
BiocHail	45
BiocHubsShiny	97
BiocInstaller	274
BiocIO	19866
BiocNeighbors	11111
BiocOncoTK	78
BioCor	104
BiocParallel	41465
BiocPkgTools	149
biocroxytest	53
BiocSet	321
BiocSingular	12665
BiocSklearn	113
BiocStyle	5645
biocthis	245
BiocVersion	60017
biocViews	4341
BiocWorkflowTools	188
biodb	162
biodbChebi	87
biodbExpasy	61
biodbHmdb	80
biodbKegg	76
biodbLipidmaps	42
biodbMirbase	22
biodbNcbi	69
biodbNci	76
biodbUniprot	69
bioDist	263
BioGA	23
biomaRt	22836
BioMedR	4
biomformat	5492
BioMM	16
BioMVCClass	111
biomvRCNS	110
BioNAR	87
BioNERO	280
BioNet	270
BioNetStat	80
BioQC	143
BioSeqClass	42
biosigner	118
Biostrings	48478
biosvd	35
BioTIP	94
biotmle	86
biovizBase	5249
BiRewire	168
birta	38
birte	21
biscuiteer	94
BiSeq	149
BitSeq	50
blacksheepr	90
blima	100
BLMA	100
BloodGen3Module	146
bluster	5624
bnbc	209
bnem	85
BOBaFIT	80
borealis	79
BPRMeth	102
BRAIN	155
brainflowprobes	46
brainImageR	4
BrainSABER	11
BrainStars	35
branchpointer	106
breakpointR	86
brendaDb	76
BREW3R.r	42
BRGenomics	100
bridge	42
BridgeDbR	102
broadSeq	26
BrowserViz	165
BrowserVizDemo	14
BSgenome	16352
BSgenomeForge	163
bsseq	1486
BubbleTree	114
BufferedMatrix	111
BufferedMatrixMethods	106
bugsigdbr	189
BUMHMM	106
bumphunter	2771
BumpyMatrix	524
BUS	107
BUScorrect	78
BUSpaRse	214
BUSseq	78
CaDrA	58
CAEN	65
CAFE	111
CAGEfightR	244
cageminer	81
CAGEr	257
CALIB	43
calm	62
CAMERA	469
CAMTHC	7
CaMutQC	47
canceR	128
cancerclass	279
CancerInSilico	25
CancerMutationAnalysis	41
CancerSubtypes	81
CAnD	27
caOmicsV	21
cardelino	83
Cardinal	227
CardinalIO	158
CARNIVAL	153
casper	103
CATALYST	570
Category	1714
categoryCompare	117
CatsCradle	16
CausalR	98
cbaf	92
CBEA	112
cBioPortalData	397
CBNplot	136
cbpManager	73
ccfindR	104
ccImpute	73
ccmap	106
CCPlotR	83
CCPROMISE	90
ccrepe	145
CDI	63
celaref	95
celda	755
CellaRepertorium	38
CellBarcode	89
cellbaseR	99
CellBench	146
cellGrowth	32
cellHTS	37
cellHTS2	209
CelliD	204
cellity	90
CellMapper	80
cellmigRation	66
CellMixS	100
CellNOptR	199
cellscape	69
CellScore	78
CellTrails	82
cellTree	24
cellxgenedp	104
CEMiTool	166
censcyt	78
Cepo	174
ceRNAnetsim	64
CeTF	103
CexoR	108
CFAssay	81
cfdnakit	73
cfDNAPro	97
cfTools	66
CGEN	101
CGHbase	418
CGHcall	388
cghMCR	123
CGHnormaliter	116
CGHregions	129
ChAMP	703
CHARGE	11
charm	48
ChemmineOB	315
ChemmineR	808
CHETAH	114
ChIC	19
Chicago	111
chihaya	128
chimera	43
chimeraviz	131
ChIPanalyser	89
ChIPComp	96
chipenrich	167
ChIPexoQual	97
ChIPpeakAnno	1060
ChIPQC	351
ChIPseeker	1850
chipseq	620
ChIPseqR	130
ChIPSeqSpike	14
ChIPsim	123
ChIPXpress	95
chopsticks	129
chroGPS	41
chromDraw	93
ChromHeatMap	141
ChromoViz	4
chromPlot	225
ChromSCape	84
chromstaR	104
chromswitch	24
chromVAR	1152
CHRONOS	86
cicero	234
CIMICE	71
CINdex	90
circRNAprofiler	99
CircSeqAlignTk	73
cisPath	87
CiteFuse	100
ClassifyR	354
cleanUpdTSeq	116
CleanUpRNAseq	23
cleaver	220
clevRvis	76
clippda	111
clipper	131
cliProfiler	70
cliqueMS	116
Clomial	89
Clonality	45
clonotypeR	39
clst	108
clstutils	107
CluMSID	83
ClustAll	51
clustComp	91
clusterExperiment	305
ClusterFoldSimilarity	47
ClusterJudge	83
clusterProfiler	19727
clusterSeq	90
ClusterSignificance	81
clusterStab	122
clustifyr	171
ClustIRR	71
CMA	163
cmapR	420
CNAnorm	107
CNEr	3473
cn.farms	111
cn.mops	254
CNORdt	107
CNORfeeder	117
CNORfuzzy	114
CNORode	126
CNPBayes	21
CNTools	150
CNVfilteR	82
CNVgears	33
cnvGSA	103
CNViz	77
CNVMetrics	72
CNVPanelizer	97
CNVRanger	115
CNVrd2	106
CNVtools	35
cobindR	38
CoCiteStats	103
COCOA	105
codelink	128
CODEX	125
coexnet	20
CoGAPS	332
cogena	116
cogeqc	87
Cogito	72
coGPS	99
COHCAP	57
cola	140
comapr	78
combi	108
coMET	96
coMethDMR	86
compartmap	38
COMPASS	120
compcodeR	120
compEpiTools	107
CompGO	31
ComplexHeatmap	15568
CompoundDb	251
ComPrAn	71
compSPOT	54
conclus	8
concordexR	89
condcomp	5
condiments	121
CONFESS	100
consensus	72
ConsensusClusterPlus	3022
consensusDE	93
consensusOV	122
consensusSeekeR	108
consICA	187
CONSTANd	71
contiBAIT	50
conumee	193
convert	167
copa	102
COPDSexualDimorphism	3
copynumber	136
CopyNumber450k	20
CopyNumberPlots	149
CopywriteR	44
coRdon	180
CoRegFlux	5
CoRegNet	50
CoreGx	341
Cormotif	113
CorMut	33
coRNAi	35
corral	93
CORREP	54
coseq	162
CoSIA	56
cosmiq	174
cosmo	10
cosmoGUI	10
cosmosR	103
COSNet	89
COTAN	104
CountClust	19
countsimQC	299
covEB	79
CoverageView	103
covRNA	83
cpvSNP	98
cqn	309
CRImage	130
CRISPRball	59
crisprBase	148
crisprBowtie	142
crisprBwa	71
crisprDesign	129
crisprScore	157
CRISPRseek	168
crisprseekplus	33
crisprShiny	47
CrispRVariants	140
crisprVerse	99
crisprViz	109
crlmm	312
CrossICC	4
crossmeta	177
CSAR	119
csaw	568
csdR	64
CSSP	33
CSSQ	72
ctc	277
CTdata	64
CTDquerier	82
CTexploreR	46
ctgGEM	9
cTRAP	93
ctsGE	85
CTSV	78
cummeRbund	255
CuratedAtlasQueryR	81
customCMPdb	86
customProDB	126
CVE	15
cyanoFilter	77
cycle	109
cydar	115
cypress	43
CytoDx	103
cytofast	9
cytofkit	33
CyTOFpower	63
cytofQC	81
CytoGLMM	87
cytoKernel	84
cytolib	2678
cytomapper	320
CytoMDS	44
cytoMEM	114
CytoML	446
CytoPipeline	88
CytoPipelineGUI	58
CytoTree	16
cytoviewer	116
dada2	2303
dagLogo	121
daMA	101
DAMEfinder	83
DaMiRseq	116
Damsel	34
DAPAR	149
dar	45
DART	108
DASC	2
DASiR	23
dasper	13
DAVIDQuery	24
DBChIP	43
dcanr	146
DCATS	83
dce	90
dcGSA	76
DChIPRep	26
ddCt	131
ddgraph	31
ddPCRclust	102
dearseq	223
debCAM	82
debrowser	169
DECIPHER	2858
deco	17
DEComplexDisease	17
decompTumor2Sig	135
DeconRNASeq	273
decontam	1666
decontX	213
deconvR	89
decoupleR	1156
DEDS	37
DeepBlueR	36
DeepPINCS	75
deepSNV	179
DeepTarget	24
DEFormats	257
DegCre	42
DegNorm	77
DEGraph	100
DEGreport	606
DEGseq	195
DelayedArray	41890
DelayedDataFrame	85
DelayedMatrixStats	15782
DelayedRandomArray	80
DelayedTensor	73
DELocal	91
deltaCaptureC	74
deltaGseg	92
DeMAND	77
DeMixT	119
demuxmix	252
demuxSNP	63
densvis	1611
DEP	553
DepecheR	92
DepInfeR	65
DeProViR	37
DEqMS	255
derfinder	562
derfinderHelper	560
derfinderPlot	150
DEScan2	94
DESeq	200
DESeq2	22060
DEsingle	261
DESpace	79
destiny	648
DEsubs	86
DEWSeq	85
DExMA	81
DEXSeq	1455
dexus	41
DFP	110
DFplyr	10
DIAlignR	65
DiffBind	1059
diffcoexp	177
diffcyt	451
DifferentialRegulation	77
diffGeneAnalysis	96
diffHic	140
DiffLogo	106
diffloop	31
diffuStats	91
diffUTR	74
diggit	91
Dino	78
dinoR	42
Director	62
dir.expiry	3431
DirichletMultinomial	4843
discordant	106
DiscoRhythm	91
distinct	264
dittoSeq	1431
divergence	67
dks	84
DMCFB	79
DMCHMM	79
DMRcaller	118
DMRcate	1048
DMRforPairs	43
DMRScan	72
dmrseq	207
DNABarcodeCompatibility	62
DNABarcodes	162
DNAcopy	5238
DNAfusion	72
DNaseR	6
DNAshapeR	107
domainsignatures	34
DominoEffect	82
dominoSignal	19
doppelgangR	209
DOQTL	24
Doscheda	89
DOSE	19039
doseR	76
doubletrouble	86
dpeak	23
drawProteins	185
dreamlet	94
DRIMSeq	288
DriverNet	88
DropletUtils	2508
drugTargetInteractions	79
DrugVsDisease	175
dSimer	11
DSS	851
dStruct	66
DTA	101
dualKS	41
Dune	66
DupChecker	19
DuplexDiscovereR	9
dupRadar	145
dyebias	117
DynDoc	1340
easier	132
EasyCellType	86
easylift	65
EasyqpcR	37
easyreporting	76
easyRNASeq	193
EBarrays	221
EBcoexpress	116
EBImage	2721
EBSEA	77
EBSeq	388
EBSeqHMM	52
ecolitk	119
EDASeq	1772
edd	15
EDDA	35
edge	131
edgeR	24374
EDIRquery	59
eds	394
eegc	63
EGAD	94
EGSEA	252
eiR	101
eisa	47
eisaR	133
ELBOW	34
ELMER	207
EMDomics	111
EmpiricalBrownsMethod	127
ENCODExplorer	27
EnhancedVolcano	4874
enhancerHomologSearch	74
EnMCB	78
ENmix	271
EnrichDO	14
EnrichedHeatmap	557
EnrichmentBrowser	584
enrichplot	18772
enrichTF	54
enrichViewNet	75
ensembldb	9910
ensemblVEP	152
ENVISIONQuery	35
epialleleR	81
EpiCompare	45
epidecodeR	69
EpiDISH	673
epigenomix	104
epigraHMM	84
epihet	15
EpiMix	73
epimutacions	79
epiNEM	143
EpipwR	9
epiregulon	47
epiregulon.extra	45
epistack	71
epistasisGA	64
EpiTxDb	93
epivizr	146
epivizrChart	88
epivizrData	133
epivizrServer	128
epivizrStandalone	86
erccdashboard	114
erma	143
ERSSA	82
esATAC	111
escape	431
escheR	115
esetVis	97
eudysbiome	84
evaluomeR	82
EventPointer	96
EWCE	251
ExCluster	65
ExiMiR	105
exomeCopy	258
exomePeak	41
exomePeak2	92
exonmap	11
ExperimentHub	7726
ExperimentHubData	278
ExperimentSubset	94
explorase	35
ExploreModelMatrix	185
ExpressionAtlas	234
ExpressionView	44
exprExternal	2
externalVector	10
extraChIPs	105
fabia	188
facopy	19
factDesign	109
factR	75
faers	62
FamAgg	94
famat	80
farms	64
fastLiquidAssociation	98
FastqCleaner	105
fastreeR	93
fastseg	762
fbat	7
FCBF	43
fCCAC	85
fCI	87
fcoex	43
fcScan	87
fdrame	102
FEAST	139
FeatSeekR	60
fedup	70
FELLA	149
FEM	36
fenr	64
ffpe	110
fgga	71
FGNet	123
fgsea	18118
FilterFFPE	80
findIPs	47
FindIT2	76
FindMyFriends	28
FISHalyseR	88
fishpond	257
FitHiC	95
flagme	97
FLAMES	102
flipflop	31
flowAI	550
flowBeads	105
flowBin	107
flowcatchR	107
flowCHIC	103
flowCL	37
flowClean	223
flowClust	778
flowCore	2847
flowCut	133
flowCyBar	90
flowDensity	276
flowFit	33
flowFlowJo	18
flowFP	181
flowGate	99
flowGraph	67
flowMap	57
flowMatch	109
flowMeans	166
flowMerge	150
flowPeaks	184
flowPhyto	12
flowPloidy	89
flowPlots	92
flowQ	35
flowQB	36
FlowRepositoryR	26
FlowSOM	1074
flowSpecs	103
flowSpy	6
flowStats	488
flowTime	92
flowTrans	132
flowType	35
flowUtils	63
flowViz	1006
flowVS	137
flowWorkspace	1199
fmcsR	251
fmrs	114
fobitools	80
focalCall	24
FoldGO	35
FourCSeq	29
FRASER	136
frenchFISH	60
FRGEpistasis	88
frma	158
frmaTools	113
FScanR	17
FunChIP	47
FunciSNP	37
funOmics	25
funtooNorm	92
FuseSOM	73
G4SNVHunter	8
GA4GHclient	107
GA4GHshiny	92
gaga	123
gage	852
gaggle	64
gaia	44
GAPGOM	15
GAprediction	77
garfield	75
GARS	85
GateFinder	86
gatom	70
gaucho	26
GBScleanR	94
gcapc	83
gcatest	107
gCMAP	40
gCMAPWeb	33
gCrisprTools	86
gcrma	1210
GCSConnection	8
GCSFilesystem	7
GCSscore	19
GDCRNATools	258
gDNAx	82
gDR	60
gDRcore	75
gDRimport	81
gDRstyle	94
gDRutils	96
GDSArray	221
gdsfmt	2074
GeDi	57
geecc	31
GEM	78
gemini	66
gemma.R	92
genArise	95
genbankr	66
gene2pathway	12
GeneAccord	16
GeneAnswers	52
geneAttribution	88
GeneBreak	99
geneClassifiers	75
GENE.E	27
GeneExpressionSignature	124
genefilter	12062
genefu	376
GeneGA	85
GeneGeneInteR	79
GeneGroupAnalysis	8
GeneMeta	141
GeneNetworkBuilder	118
GeneOverlap	537
geneplast	117
geneplotter	5152
GeneR	11
geneRecommender	100
GeneRegionScan	117
GeneRfold	5
geneRxCluster	103
GeneSelectMMD	121
GeneSelector	39
GENESIS	356
GeneSpring	8
GeneStructureTools	104
geNetClassifier	155
GeneticsBase	7
GeneticsDesign	37
GeneticsPed	126
GeneTonic	353
GeneTraffic	8
GeneTS	5
geneXtendeR	109
GENIE3	1255
genoCN	92
GenoGAM	20
genomation	657
GenomAutomorphism	60
GenomeBase	1
GenomeGraphs	49
GenomeInfoDb	56386
genomeIntervals	192
genomes	114
GenomicAlignments	24074
GenomicDataCommons	1083
GenomicDistributions	119
GenomicFeatures	19451
GenomicFiles	1291
genomicInstability	81
GenomicInteractionNodes	70
GenomicInteractions	415
GenomicOZone	98
GenomicPlot	95
GenomicRanges	44766
GenomicScores	675
GenomicSuperSignature	87
GenomicTuples	89
Genominator	46
genoset	48
genotypeeval	34
GenoView	13
genphen	16
GenProSeq	63
GenRank	12
GenVisR	290
GeoDiff	89
GEOexplorer	78
GEOfastq	95
GEOmetadb	245
geomeTriD	12
GeomxTools	402
GEOquery	9655
GEOsearch	15
GEOsubmission	106
GeoTcgaData	174
gep2pep	80
gespeR	105
getDEE2	70
geva	70
GEWIST	84
gff3Plotter	2
gg4way	65
GGBase	50
ggbio	2004
ggcyto	847
ggkegg	438
ggmanh	253
ggmsa	527
GGPA	65
ggsc	93
ggseqalign	25
ggspavis	208
GGtools	53
ggtree	21753
ggtreeDendro	76
ggtreeExtra	1072
ggtreeSpace	44
GIGSEA	70
ginmappeR	46
gINTomics	28
girafe	137
GISPA	41
GLAD	219
GladiaTOX	70
Glimma	1081
glmGamPoi	4822
glmSparseNet	221
GlobalAncova	1044
globalSeq	79
globaltest	1877
GloScope	68
gmapR	174
GmicR	85
gmoviz	77
GMRP	81
GNET2	71
GNOSIS	73
goCluster	1
GOexpress	119
GOfuncR	356
GOFunction	39
GoogleGenomics	19
GOpro	154
goProfiles	143
GOSemSim	18735
goseq	1386
GOSim	107
goSorensen	82
goSTAG	88
GOstats	1556
GOsummaries	54
GOTHiC	112
goTools	111
GPA	73
gpart	21
gpls	265
gprege	31
gpuMagic	71
gQTLBase	30
gQTLstats	31
GrafGen	41
gramm4R	7
GRaNIE	149
granulator	131
graper	71
graph	18821
GraphAlignment	92
GraphAT	115
graphite	3102
GraphPAC	119
GRENITS	91
GreyListChIP	971
GRmetrics	111
groHMM	103
GRridge	25
GSALightning	71
GSAR	134
GSCA	97
gscreend	74
GSEABase	8989
GSEABenchmarkeR	108
GSEAlm	125
GSEAmining	82
gsean	87
GSgalgoR	73
GSReg	101
GSRI	112
GSVA	7009
gtrellis	152
GUIDEseq	117
Guitar	163
Gviz	3499
GWAS.BAYES	77
gwascat	648
GWASTools	614
gwasurvivr	112
GWENA	260
gypsum	1991
h5vc	130
hapFabia	101
Harman	163
HarmonizR	79
Harshlight	120
hca	78
HCABrowser	8
HCAExplorer	5
HCAMatrixBrowser	2
HCsnip	30
HDF5Array	14741
HDTD	77
hdxmsqc	30
heatmaps	267
Heatplus	479
HelloRanges	135
HELP	102
HEM	102
hermes	219
HERON	59
Herper	141
hexbin	44
HGC	81
hiAnnotator	114
HIBAG	139
HicAggR	43
HiCBricks	155
HiCcompare	255
HiCDCPlus	108
HiCDOC	94
HiCExperiment	150
HiContacts	131
HiCool	83
hicrep	11
hicVennDiagram	66
hierGWAS	93
hierinf	64
HilbertCurve	119
HilbertVis	189
HilbertVisGUI	74
HiLDA	85
hipathia	211
HIPPO	71
hiReadsProcessor	103
HIREewas	76
HiTC	174
hmdbQuery	96
HMMcopy	336
HoloFoodR	23
hoodscanR	83
hopach	331
HPAanalyze	150
hpar	284
HPAStainR	12
HPiP	72
HTqPCR	124
HTSanalyzeR	44
HTSeqGenie	76
htSeqTools	38
HTSFilter	219
HuBMAPR	9
HubPub	129
HumanTranscriptomeCompendium	55
hummingbird	66
HybridExpress	59
HybridMTest	138
hypeR	121
hyperdraw	131
hypergraph	184
iASeq	89
iasva	88
iBBiG	124
ibh	95
iBMQ	79
iCARE	169
Icens	427
icetea	81
iCheck	91
iChip	102
iClusterPlus	415
iCNV	86
iCOBRA	262
ideal	119
IdeoViz	105
idiogram	112
IdMappingAnalysis	33
IdMappingRetrieval	38
idpr	87
idr2d	75
IFAA	64
iFlow	6
iGC	91
IgGeneUsage	70
igvR	136
igvShiny	57
IHW	693
illuminaio	2943
ILoReg	72
imageHTS	53
IMAS	85
imcRtools	235
Imetagene	26
IMMAN	77
ImmuneSpaceR	52
immunoClust	101
immunogenViewer	23
immunotation	72
IMPCdata	77
ImpulseDE	9
ImpulseDE2	19
impute	10579
INDEED	62
iNETgrate	67
infercnv	1125
infinityFlow	101
Informeasure	66
InPAS	104
INPower	100
inSilicoDb	30
inSilicoMerging	31
INSPEcT	105
INTACT	63
InTAD	82
intansv	118
interacCircos	76
InteractionSet	1968
InteractiveComplexHeatmap	398
interactiveDisplay	135
interactiveDisplayBase	6444
InterCellar	92
IntEREst	98
InterMineR	98
IntOMICS	19
IntramiRExploreR	77
inveRsion	32
IONiseR	109
iontree	29
iPAC	134
iPath	62
ipdDb	189
IPO	198
IPPD	34
IRanges	53726
IRISFGM	46
IrisSpatialFeatures	4
ISAnalytics	71
iSEE	504
iSEEde	84
iSEEfier	52
iSEEhex	147
iSEEhub	192
iSEEindex	71
iSEEpathways	70
iSEEtree	38
iSEEu	146
iSeq	86
ISLET	72
iSNetwork	3
isobar	129
IsoBayes	60
IsoCorrectoR	107
IsoCorrectoRGUI	78
IsoformSwitchAnalyzeR	283
IsoGeneGUI	44
ISoLDE	63
isomiRs	169
iSPlot	4
ITALICS	107
iterativeBMA	106
iterativeBMAsurv	88
iterClust	41
iteremoval	14
IVAS	104
ivygapSE	81
IWTomics	96
jmosaics	21
joda	38
JunctionSeq	19
karyoploteR	806
katdetectr	81
KBoost	61
KCsmart	112
kebabs	150
KEGGgraph	5444
KEGGlincs	97
keggorth	4
keggorthology	246
KEGGprofile	45
KEGGREST	36025
KEGGSOAP	17
kimod	12
KinSwingR	76
kissDE	89
kmcut	20
KnowSeq	85
knowYourCG	41
koinar	12
LACE	190
lapmix	97
LBE	208
ldblock	127
LEA	575
LedPred	76
lefser	521
lemur	92
les	112
levi	63
lfa	278
limma	33562
limmaGUI	121
limpca	43
LimROTS	1
LINC	13
LineagePulse	34
lineagespot	69
LinkHD	82
Linnorm	214
LinTInd	71
lionessR	78
lipidr	166
LiquidAssociation	110
lisaClust	152
lmdme	98
LMGene	42
LOBSTAHS	121
loci2path	85
logicFS	129
logitT	49
Logolas	13
lol	26
LOLA	290
LoomExperiment	601
LowMACA	32
LPE	115
LPEadj	63
lpNet	110
lpsymphony	958
LRBaseDbi	118
LRcell	69
lumi	1226
lute	44
LVSmiRNA	39
LymphoSeq	98
M3C	632
M3D	24
M3Drop	632
m6Aboost	66
maanova	56
Maaslin2	966
Macarron	114
macat	70
maCorrPlot	93
MACPET	17
MACSQuantifyR	60
MACSr	121
maDB	17
made4	285
MADSEQ	87
maftools	2514
MAGAR	159
MAGeCKFlute	359
magpie	67
magrene	68
MAI	81
maigesPack	70
MAIT	172
makecdfenv	200
makePlatformDesign	7
MANOR	109
manta	39
MantelCorr	86
MAPFX	46
mAPKL	34
maPredictDSC	98
mapscape	68
mariner	76
marr	74
marray	1921
martini	83
maser	148
maSigPro	295
maskBAD	106
MassArray	85
massiR	97
MassSpecWavelet	1749
MAST	2078
mastR	189
matchBox	84
matchprobes	8
MatrixGenerics	39900
MatrixQCvis	200
MatrixRider	95
matter	225
MaxContrastProjection	14
MBAmethyl	72
MBASED	91
MBCB	97
MBECS	92
mbkmeans	375
mbOmic	7
mBPCR	107
MBQN	80
mbQTL	62
MBttest	79
mcaGUI	39
MCbiclust	84
MCRestimate	41
mCSEA	124
mdgsa	28
mdp	77
mdqc	116
MDTS	74
MEAL	121
MeasurementError.cor	91
MEAT	76
MEB	72
MEDIPS	158
MEDME	100
megadepth	153
MEIGOR	102
Melissa	75
memes	226
MergeMaid	46
Mergeomics	92
MeSHDbi	256
meshes	175
meshr	157
MeSHSim	13
MesKit	101
messina	94
metaArray	45
Metab	120
metabCombiner	110
metabinR	59
MetaboAnnotation	273
MetaboCoreUtils	1862
metabolomicsWorkbenchR	101
metabomxtr	91
MetaboSignal	142
metaCCA	128
MetaCyto	101
metagene	42
metagene2	95
metagenomeFeatures	26
metagenomeSeq	1604
metahdep	100
metaMS	200
MetaNeighbor	116
MetaPhOR	85
metapod	4850
metapone	78
metaSeq	107
metaseqR	38
metaseqR2	101
metavizr	22
MetaVolcanoR	52
metaX	11
MetCirc	106
MethCP	13
methimpute	83
methInheritSim	93
methodical	35
MethPed	83
MethReg	77
methrix	109
MethTargetedNGS	86
methVisual	36
methyAnalysis	45
MethylAid	123
methylCC	93
methylclock	175
methylGSA	142
methyLImp2	49
methylInheritance	90
methylKit	630
MethylMix	128
methylMnM	103
methylPipe	135
methylscaper	103
MethylSeekR	176
methylSig	105
methylumi	1537
methyvim	15
MetID	81
MetMashR	8
MetNet	81
mfa	118
Mfuzz	1341
MGFM	96
MGFR	88
MGnifyR	71
mgsa	145
mia	1488
miaSim	93
miaViz	286
MiChip	95
microbiome	1731
microbiomeDASim	77
microbiomeExplorer	96
microbiomeMarker	390
MicrobiomeProfiler	142
MicrobiotaProcess	508
microRNA	191
microSTASIS	68
MICSQTL	60
midasHLA	72
MIGSA	22
miloR	373
mimager	93
MIMOSA	42
mina	62
MineICA	115
minet	802
minfi	2417
MinimumDistance	134
MiPP	109
miQC	127
MIRA	111
MiRaGE	106
miRBaseConverter	126
miRcomp	92
mirIntegrator	104
MIRit	58
miRLAB	108
miRmine	47
miRNAmeConverter	87
miRNApath	98
miRNAtap	176
miRSM	75
miRsponge	10
miRspongeR	68
Mirsynergy	28
mirTarRnaSeq	84
missMethyl	1036
missRows	80
mistyR	115
mitch	76
mitoClone2	96
mitoODE	30
mixOmics	2629
MLInterfaces	446
mlm4omics	4
MLP	163
MLSeq	164
MMAPPR2	24
MMDiff	27
MMDiff2	85
mmgmos	3
mmnet	28
MmPalateMiRNA	41
MMUPHin	153
mnem	145
moanin	205
mobileRNA	45
MobilityTransformR	71
MODA	83
ModCon	60
Modstrings	197
MOFA	9
MOFA2	524
MOGAMUN	72
mogsa	241
MoleculeExperiment	91
MOMA	79
monaLisa	179
monocle	3300
Moonlight2R	71
MoonlightR	107
MoPS	22
mosaics	207
mosbi	69
MOSClip	10
mosdef	101
MOSim	84
Motif2Site	70
motifbreakR	222
motifcounter	83
MotifDb	604
motifmatchr	1353
MotifPeeker	1
motifRG	38
motifStack	695
motifTestR	59
MotIV	56
MouseFM	187
MPAC	24
MPFE	76
mpra	91
MPRAnalyze	89
MQmetrics	26
mQTL.NMR	23
msa	1742
MSA2dist	114
MsBackendMassbank	98
MsBackendMetaboLights	10
MsBackendMgf	417
MsBackendMsp	331
MsBackendRawFileReader	85
MsBackendSql	95
MsCoreUtils	3636
MsDataHub	94
MSEADbi	5
MsExperiment	1451
MsFeatures	1503
msgbsR	91
MSGFgui	30
MSGFplus	31
msImpute	212
mslp	57
msmsEDA	281
msmsTests	272
MSnbase	3178
MSnID	325
mspms	0
MSPrep	192
msPurity	99
msqrob2	169
MsQuality	80
MSstats	511
MSstatsBig	62
MSstatsConvert	457
MSstatsLiP	97
MSstatsLOBD	73
MSstatsPTM	202
MSstatsQC	88
MSstatsQCgui	70
MSstatsSampleSize	19
MSstatsShiny	119
MSstatsTMT	275
MSstatsTMTPTM	5
MTseeker	5
MuData	83
Mulcom	115
MultiAssayExperiment	6306
MultiBaC	99
multiClust	113
multicrispr	82
MultiDataSet	1229
multiGSEA	149
multiHiCcompare	154
MultiMed	90
multiMiR	264
MultimodalExperiment	58
multiOmicsViz	42
MultiRNAflow	82
multiscan	100
multiSight	38
multistateQTL	40
multiWGCNA	97
multtest	12251
mumosa	92
MungeSumstats	1001
muscat	533
muscle	343
musicatk	108
MutationalPatterns	307
MVCClass	121
mvGST	22
MWASTools	159
mygene	337
myvariant	111
mzID	3070
mzR	3299
NADfinder	90
NanoMethViz	112
NanoStringDiff	114
NanoStringNCTools	391
NanoStringQCPro	42
nanotatoR	65
NanoTube	98
NarrowPeaks	36
NBAMSeq	175
NBSplice	17
ncdfFlow	1097
ncGTW	149
NCIgraph	111
ncRNAtools	72
ndexr	88
neaGUI	21
nearBynding	74
Nebulosa	1213
NeighborNet	25
nem	51
nempi	81
NetActivity	68
netbenchmark	23
netbiov	52
netboost	68
netboxr	12
netDx	58
nethet	104
netOmics	28
NetPathMiner	87
netprioR	71
netReg	16
netresponse	116
NetSAM	130
netSmooth	93
networkBMA	41
netZooR	84
NeuCA	52
NewWave	117
NGScopy	21
ngsReports	96
nipalsMCIA	66
nnNorm	108
nnSVG	150
NOISeq	606
nondetects	66
NoRCE	76
normalize450K	76
NormalyzerDE	189
NormqPCR	188
normr	156
NPARC	90
npGSEA	103
NTW	93
nucleoSim	83
nucleR	131
nuCpos	74
nudge	31
nullranges	190
NuPoP	107
NxtIRFcore	11
occugene	94
OCplus	128
octad	80
ODER	8
odseq	85
OGRE	77
OGSA	21
oligo	1660
oligoClasses	1659
OLIN	126
OLINgui	108
omada	65
OmaDB	253
omicade4	185
OmicCircos	207
omicplotR	88
omicRexposome	91
OmicsLonDA	19
OmicsMarkeR	24
OmicsMLRepoR	10
OMICsPCA	90
omicsPrint	89
omicsViewer	71
Omixer	75
OmnipathR	664
ompBAM	121
omXplore	11
Onassis	18
oncomix	77
oncoscanR	74
OncoScore	90
OncoSimulR	98
oneChannelGUI	47
oneSENSE	27
onlineFDR	62
ontoCAT	31
ontoProc	257
ontoTools	15
openCyto	638
openPrimeR	159
openPrimeRui	66
OpenStats	64
OperaMate	14
oposSOM	125
oppar	93
oppti	66
optimalFlow	85
OPWeight	79
OrderedList	113
ORFhunteR	73
ORFik	192
OrganismDbi	2998
Organism.dplyr	421
orthogene	324
orthos	67
OSAT	119
Oscope	106
OTUbase	105
OutlierD	40
OUTRIDER	195
OutSplice	67
OVESEG	88
PAA	104
packFinder	81
padma	77
PADOG	324
pageRank	75
PAIRADISE	112
paircompviz	95
pairedGSEA	67
pairkat	98
pairseqsim	3
pamr	16
pandaR	135
panelcn.mops	103
PAnnBuilder	38
PanomiR	81
panp	129
PANR	102
PanViz	50
PanVizGenerator	19
PAPi	36
pareg	65
parglms	85
parody	118
partCNV	57
PAST	74
Path2PPI	92
pathifier	121
pathlinkR	68
PathNet	102
PathoStat	169
pathprint	13
pathRender	113
pathVar	30
pathview	4554
pathwayPCA	96
PathwaySplice	12
PatientGeneSets	5
paxtoolsr	122
Pbase	27
pbcmc	8
pcaExplorer	432
pcaGoPromoter	34
pcaMethods	5199
PCAN	91
PCAtools	1222
pcot2	50
PCpheno	43
pcxn	56
PDATK	186
pdInfoBuilder	157
pdmclass	39
PeacoQC	241
peakPantheR	79
PECA	102
peco	71
Pedixplorer	43
pengls	60
PepSetTest	21
PepsNMR	129
pepStat	89
pepXMLTab	91
PERFect	32
periodicDNA	71
perturbatr	12
pfamAnalyzeR	243
PFP	10
PGA	26
pgca	67
PGSEA	80
pgUtils	10
pgxRpi	48
phantasus	225
phantasusLite	76
PharmacoGx	279
phemd	28
phenoDist	30
PhenoGeneRanker	57
phenomis	81
phenopath	111
phenoTest	148
PhenStat	97
philr	181
PhIPData	91
phosphonormalizer	69
PhosR	135
PhyloProfile	96
phyloseq	5451
Pi	59
piano	468
pickgene	90
PICS	142
Pigengene	118
PING	121
pint	31
pipeComp	78
pipeFrame	146
PIPETS	45
Pirat	20
PIUMA	45
pkgDepTools	54
planet	195
planttfhunter	88
plasmut	55
plateCore	39
plethy	43
plgem	130
plier	154
PloGO2	50
plotgardener	281
plotGrouper	69
PLPE	103
plrs	33
PLSDAbatch	64
plw	44
plyinteractions	74
plyranges	1212
plyxp	8
pmm	88
pmp	131
PoDCall	65
podkat	101
pogos	123
polyester	136
Polyfit	29
PolySTest	17
POMA	186
POST	13
PoTRA	13
PowerExplorer	12
powerTCR	325
POWSC	83
ppcseq	73
PPInfer	206
ppiStats	52
pqsfinder	129
prada	53
pram	80
prebs	111
preciseTAD	85
PrecisionTrialDrawer	14
PREDA	118
predictionet	38
preprocessCore	14132
primirTSS	84
PrInCE	79
Prize	23
proActiv	88
proBAMr	89
proBatch	28
PROcess	131
procoil	102
ProCoNA	30
proDA	251
proFIA	24
profileplyr	239
profileScoreDist	79
progeny	445
projectR	101
pRoloc	260
pRolocGUI	125
PROMISE	119
PRONE	11
PROPER	124
PROPS	76
Prostar	111
prot2D	28
proteasy	24
proteinProfiles	83
ProteoDisco	75
ProteomicsAnnotationHubData	26
ProteoMM	97
proteoQC	26
protGear	77
ProtGenerics	11653
PSEA	51
psichomics	95
PSICQUIC	44
PSMatch	1586
psygenet2r	104
ptairMS	70
PubScore	9
pulsedSilac	9
puma	142
PureCN	182
pvac	104
pvca	261
Pviz	111
pwalign	3876
PWMEnrich	208
pwOmics	185
pwrEWAS	20
qckitfastq	87
qcmetrics	121
QDNAseq	360
QFeatures	2463
qmtools	75
qpcrNorm	115
qpgraph	188
qPLEXanalyzer	84
qrqc	47
qsea	94
qsmooth	182
QSutils	134
qsvaR	199
QTLExperiment	62
Qtlizer	72
QUALIFIER	40
quantiseqr	486
quantro	313
quantsmooth	628
QuartPAC	89
QuasR	364
QuaternaryProd	92
QUBIC	139
qusage	390
qvalue	18200
R3CPET	92
r3Cseq	125
R453Plus1Toolbox	121
R4RNA	631
RadioGx	88
raer	60
RaggedExperiment	870
RAIDS	65
rain	127
rama	38
RamiGO	28
ramr	70
ramwas	131
RandomWalkRestartMH	60
randPack	96
randRotation	64
RankProd	277
RAREsim	61
RareVariantVis	100
Rariant	40
Rarr	161
rawDiag	48
rawrr	199
RbcBook1	149
Rbec	79
RBGL	9287
RBioFormats	186
RBioinf	111
rBiopaxParser	180
rBLAST	110
RBM	92
Rbowtie	494
Rbowtie2	274
rbsurv	118
Rbwa	86
Rcade	47
RCAS	144
RCASPAR	84
rcellminer	110
rCGH	131
Rchemcpp	31
RchyOptimyx	37
RcisTarget	1003
RCM	92
Rcollectl	38
Rcpi	154
RCSL	70
Rcwl	106
RcwlPipelines	107
RCX	85
RCy3	931
RCyjs	99
RCytoscape	31
RDAVIDWebService	58
Rdbi	12
RdbiPgSQL	9
rDGIdb	87
Rdisop	422
RDRToolbox	168
ReactomeContentService4R	110
ReactomeGraph4R	55
ReactomeGSA	232
ReactomePA	2622
readat	13
ReadqPCR	210
reb	41
REBET	73
rebook	138
receptLoss	66
reconsi	74
recount	396
recount3	288
recountmethylation	97
recoup	86
RedeR	323
RedisParam	64
REDseq	132
RefNet	31
RefPlus	66
RegEnrich	106
regionalpcs	77
RegionalST	64
regioneR	1902
regioneReloaded	76
regionReport	167
regsplice	79
regutools	97
REMP	95
Repitools	296
ReportingTools	614
reposTools	1
RepViz	102
ReQON	62
ResidualMatrix	3703
RESOLVE	73
Resourcerer	13
restfulSE	153
retrofit	59
ReUseData	74
rexposome	111
rfaRm	70
Rfastp	160
rflowcyt	12
rfPred	97
rGADEM	331
RGalaxy	40
rGenomeTracks	70
Rgin	14
RGMQL	64
RgnTX	67
rgoslin	112
RGraph2js	84
Rgraphviz	9506
rGREAT	628
RGSEA	101
rgsepd	90
rhdf5	20218
rhdf5client	155
rhdf5filters	19533
Rhdf5lib	23684
rhinotypeR	11
Rhisat2	217
Rhtslib	24918
rHVDM	38
RiboCrypt	74
RiboDiPA	73
RiboProfiling	126
ribor	75
riboSeqR	102
ribosomeProfilingQC	106
rifi	68
rifiComparative	64
RImmPort	67
Ringo	229
Rintact	5
RIPAT	27
RIPSeeker	46
Risa	199
RITAN	99
RIVER	81
RJMCMCNucleosomes	87
RLassoCox	74
RLMM	96
RLSeq	31
RMAGEML	9
Rmagpie	113
RMAPPER	10
RMassBank	142
rMAT	39
rmelting	79
RmiR	40
Rmmquant	83
rmspc	76
RNAAgeCalc	90
RNAdecay	64
rnaEditr	83
RNAinteract	96
RNAither	50
RNAmodR	115
RNAmodR.AlkAnilineSeq	83
RNAmodR.ML	79
RNAmodR.RiboMethSeq	86
RNAprobR	24
RNAsense	67
rnaseqcomp	98
RNAseqCovarImpute	58
rnaSeqMap	41
RNASeqPower	191
RNASeqR	13
RnaSeqSampleSize	127
RnBeads	296
Rnits	93
roar	104
roastgsa	61
ROC	1109
ROCpAI	62
RolDE	74
Roleswitch	36
Rolexa	27
rols	461
ROntoTools	202
ropls	1195
ROSeq	79
ROTS	219
RPA	131
rprimer	88
RProtoBufLib	2674
RpsiXML	51
rpx	316
Rqc	293
rqt	67
rqubic	126
rRDP	96
Rredland	6
RRHO	119
rrvgo	550
Rsamtools	23811
rsbml	159
rScudo	78
rsemmed	63
RSeqAn	102
rSFFreader	29
RSNPper	8
Rsubread	2229
RSVSim	105
rSWeeP	76
rTANDEM	36
RTCA	103
RTCGA	516
RTCGAToolbox	531
RTN	201
RTNduals	97
RTNsurvival	88
RTools4TB	6
RTopper	107
Rtpca	85
rtracklayer	20840
Rtreemix	112
rTRM	177
rTRMui	101
runibic	95
Ruuid	12
RUVcorr	93
RUVnormalize	105
RUVSeq	907
Rvisdiff	61
RVS	77
RWebServices	21
rWikiPathways	380
S4Arrays	39770
S4Vectors	55742
safe	663
SAGElyzer	5
sagenhaft	100
SAGx	53
SAIGEgds	116
samExploreR	14
sampleClassifier	91
SamSPECTRAL	163
sangeranalyseR	205
sangerseqR	878
SANTA	85
sapFinder	34
saps	13
SARC	61
sarks	69
saseR	51
satuRn	268
savR	37
SBGNview	200
sbgr	10
SBMLR	110
SC3	346
Scale4C	90
ScaledMatrix	12463
scAlign	19
scanMiR	95
scanMiRApp	73
scAnnotatR	204
SCAN.UPC	180
SCANVIS	83
SCArray	94
SCArray.sat	75
SCATE	43
scater	7151
scatterHatch	65
scBFA	83
SCBN	93
scBubbletree	76
scCB2	82
scClassifR	5
scClassify	135
sccomp	113
scDataviz	100
scDblFinder	1548
scDD	156
scDDboost	71
scde	397
scDesign3	82
scDiagnostics	17
scDotPlot	27
scds	501
SCFA	67
scFeatureFilter	76
scFeatures	79
scfind	11
scGPS	104
schex	202
scHOT	78
scider	68
scifer	75
ScISI	48
scMAGeCK	9
scmap	231
scMerge	535
scMET	65
scmeth	93
scMitoMut	44
scMultiSim	44
SCnorm	129
scone	132
Sconify	80
SCOPE	86
scoreInvHap	88
scoup	9
scp	227
scPCA	107
scPipe	136
scran	4847
scrapper	15
scReClassify	80
scRecover	76
screenCounter	63
ScreenR	63
scRepertoire	549
scRNAseqApp	80
scruff	93
scry	264
scShapes	64
scsR	33
scTensor	120
scTGIF	209
scTHI	67
scTreeViz	73
scuttle	9338
scviR	65
SDAMS	85
seahtrue	19
sechm	165
segmenter	88
segmentSeq	121
selectKSigs	73
SELEX	101
SemDist	88
semisup	76
SemSim	3
SEPA	19
SEPIRA	26
seq2pathway	209
seqArchR	80
seqArchRplus	66
SeqArray	925
seqbias	71
seqCAT	91
seqCNA	55
seqcombo	77
SeqGate	74
SeqGSEA	237
seq.hotSPOT	56
seqLogo	3852
seqPattern	757
seqplots	32
seqsetvis	104
SeqSQC	176
seqTools	132
SeqVarTools	439
sesame	846
SEtools	217
sevenbridges	92
sevenC	76
SGCP	180
SGSeq	327
SharedObject	139
shinyepico	87
shiny.gosling	55
shinyMethyl	147
shinyTANDEM	31
ShortRead	6256
SIAMCAT	149
SICtools	82
sigaR	36
SigCheck	94
sigFeature	267
SigFuge	103
siggenes	3367
sights	85
signatureSearch	198
signeR	101
signet	10
signifinder	64
sigPathway	59
SigsPack	73
sigsquared	91
SIM	109
SIMAT	94
SimBindProfiles	68
SimBu	169
SIMD	75
SimFFPE	69
similaRpeak	96
SIMLR	219
simona	154
simPIC	44
simpleaffy	109
simpleSeg	86
simplifyEnrichment	878
simulatorAPMS	7
simulatorZ	28
sincell	94
single	46
SingleCellAlleleExperiment	59
SingleCellExperiment	15833
SingleCellSignalR	244
singleCellTK	331
SingleMoleculeFootprinting	82
SingleR	4282
singscore	1484
SiPSiC	69
SISPA	34
sitadela	71
sitePath	80
sizepower	105
SJava	18
sketchR	59
skewr	84
slalom	148
SLGI	50
slingshot	1453
slinky	15
SLqPCR	108
SMAD	70
SMAP	62
smartid	57
SMITE	85
smoothclust	50
SNAGEE	98
snapCGH	88
snapcount	81
snifter	148
snm	160
SNPchip	49
SNPediaR	72
SNPhood	96
snpMatrix	11
SNPRelate	1694
snpStats	2119
soGGi	355
sojourner	17
SomatiCA	25
SomaticSignatures	197
SOMNiBUS	71
SpaceMarkers	42
SpacePAC	118
spade	26
Spaniel	99
SpaNorm	15
sparrow	310
SparseArray	39541
sparseDOSSA	32
sparseMatrixStats	15574
sparsenetgls	69
SparseSignatures	83
spaSim	74
SpatialCPie	95
spatialDE	121
SpatialDecon	220
SpatialExperiment	3862
SpatialFeatureExperiment	171
spatialHeatmap	248
SpatialOmicsOverlay	88
spatialSimGP	9
spatzie	68
speckle	222
specL	96
SpeCond	116
Spectra	1946
SpectralTAD	102
SpectraQL	14
SPEM	121
SPIA	620
SPIAT	136
spicyR	183
SpidermiR	56
spikeLI	86
spiky	66
spillR	49
spkTools	99
splatter	457
splicegear	38
spliceR	32
spliceSites	32
SpliceWiz	138
SplicingFactory	66
SplicingGraphs	130
SplineDV	1
splineTCDiffExpr	0
splineTimeR	97
SPLINTER	87
splots	213
SPONGE	73
spoon	46
SpotClean	110
SPOTlight	266
spotSegmentation	33
SpotSweeper	40
spqn	69
SPsimSeq	208
SQLDataFrame	73
SQUADD	55
squallms	19
sRACIPE	88
SRAdb	451
sRAP	38
SRGnet	14
srnadiff	83
sscore	55
sscu	77
sSeq	185
ssize	135
sSNAPPY	185
SSPA	99
ssPATHS	69
ssrch	74
ssviz	98
StabMap	11
stageR	192
stam	5
STAN	33
standR	150
staRank	89
StarBioTrek	47
Starr	41
STATegRa	101
Statial	86
statTarget	119
STdeconvolve	153
stepNorm	105
stepwiseCM	30
stJoincount	80
strandCheckR	83
Streamer	106
STRINGdb	1273
STROMA4	31
struct	163
Structstrings	150
structToolbox	128
StructuralVariantAnnotation	236
SubCellBarCode	82
subSeq	105
SUITOR	60
SummarizedBenchmark	42
SummarizedExperiment	39502
Summix	66
supersigs	156
supraHex	425
surfaltr	69
SurfR	37
survClust	24
survcomp	1282
survtype	75
Sushi	72
sva	7455
svaNUMT	79
SVAPLSseq	11
svaRetro	81
SVM2CRM	21
SVMDO	106
SWATH2stats	92
SwathXtend	89
swfdr	92
SwimR	26
switchBox	129
switchde	82
synapsis	62
synapter	161
synergyfinder	228
SynExtend	80
synlet	86
SynMut	71
syntenet	118
systemPipeR	1173
systemPipeShiny	85
systemPipeTools	81
tadar	72
TADCompare	103
tanggle	93
TAPseq	84
target	78
TargetDecoy	81
TargetScore	108
TargetSearch	108
TarSeqQC	31
TBSignatureProfiler	87
TCC	251
TCGAbiolinks	4199
TCGAbiolinksGUI	34
TCGAutils	776
TCseq	329
TDARACNE	40
TDbasedUFE	81
TDbasedUFEadv	75
TEKRABber	184
TENxIO	74
tenXplore	72
TEQC	121
ternarynet	93
terraTCGAdata	83
TFARM	75
TFBSTools	3531
TFEA.ChIP	102
TFHAZ	79
TFutils	95
tidybulk	315
tidyCoverage	46
tidyFlowCore	24
tidyomics	63
tidysbml	14
tidySingleCellExperiment	230
tidySpatialExperiment	58
tidySummarizedExperiment	373
tidytof	22
tigre	122
TileDBArray	83
tilingArray	161
timecourse	125
timeOmics	105
timescape	92
TimeSeriesExperiment	17
TimiRGeN	42
TIN	90
TissueEnrich	253
TitanCNA	121
tkWidgets	1346
tLOH	70
TMixClust	102
TMSig	10
TNBC.CMS	43
TnT	52
TOAST	420
tofsims	18
tomoda	77
tomoseqr	64
TOP	64
ToPASeq	28
topconfects	171
topdownr	95
topGO	2911
ToxicoGx	91
TPP	135
TPP2D	77
tpSVG	44
tracktables	170
trackViewer	593
tradeSeq	536
TrajectoryGeometry	60
TrajectoryUtils	1925
transcriptogramer	88
transcriptR	102
transformGamPoi	98
transite	84
tRanslatome	221
transmogR	44
transomics2cytoscape	87
TransView	94
TraRe	9
traseR	96
Travel	4
traviz	75
TreeAndLeaf	142
treeclimbR	47
treeio	20816
treekoR	88
TreeSummarizedExperiment	1965
TREG	69
trena	30
TReNA	2
Trendy	82
TRESS	86
tricycle	241
triform	40
trigger	114
trio	144
triplex	110
tripr	68
tRNA	136
tRNAdbImport	114
tRNAscanImport	93
TRONCO	108
TSAR	53
TSCAN	651
tscR	14
tspair	43
TSRchitect	19
TSSi	34
ttgsea	77
TTMap	82
TurboNorm	110
TVTB	94
tweeDEseq	156
twilight	132
twoddpcr	81
txcutr	69
txdbmaker	2616
tximeta	1036
tximport	3398
TxRegInfra	13
TypeInfo	89
UCell	1470
UCSC.utils	24351
Ularcirc	90
UMI4Cats	78
uncoverappLib	80
UNDO	95
unifiedWMWqPCR	67
UniProt.ws	424
Uniquorn	86
universalmotif	784
updateObject	63
UPDhmm	40
uSORT	87
VAExprs	66
VanillaICE	263
VarCon	66
variancePartition	945
VariantAnnotation	11897
VariantExperiment	67
VariantFiltering	126
VariantTools	167
vasp	6
VaSP	82
vbmp	132
VCFArray	85
VDJdive	72
Vega	31
VegaMC	99
velociraptor	159
veloviz	65
VennDetail	278
VERSO	69
vidger	136
viper	734
virtualArray	11
ViSEAGO	137
VisiumIO	47
visiumStitched	0
vissE	123
Voyager	177
VplotR	80
vsclust	71
vsn	5069
vtpnet	114
vulcan	90
waddR	67
wateRmelon	833
wavClusteR	97
waveTiling	39
weaver	106
webbioc	115
weitrix	79
widgetInvoke	5
widgetTools	1347
wiggleplotr	165
wpm	80
wppi	53
Wrench	1621
XBSeq	28
XCIR	9
xcms	1724
xcore	68
XDE	121
xenLite	14
Xeva	145
XINA	73
xmapbridge	92
xmapcore	7
XNAString	72
xps	36
XVector	49462
y2hStat	2
yamss	92
YAPSA	112
yaqcaffy	42
yarn	127
zellkonverter	1422
zenith	122
zFPKM	133
zinbwave	915
zitools	17
zlibbioc	54359
ZygosityPredictor	64