Package	Download_score
a4	96
a4Base	163
a4Classif	125
a4Core	176
a4Preproc	184
a4Reporting	124
ABAEnrichment	15
ABarray	94
abseqR	65
ABSSeq	127
acde	72
ACE	96
aCGH	227
ACME	99
ADaCGH2	86
ADAM	171
ADAMgui	101
adaptest	7
adductomicsR	63
ADImpute	77
adSplit	84
adverSCarial	41
AffiXcan	63
affxparser	1623
affy	8266
affycomp	106
AffyCompatible	33
affyContam	130
affycoretools	400
AffyExpress	23
affyILM	92
affyio	8308
affylmGUI	102
affyPara	24
affypdnn	22
affyPLM	1127
affyQCReport	28
AffyRNADegradation	72
AffyTiling	14
AGDEX	75
aggregateBioVar	77
Agi4x44PreProcess	7
agilp	100
AgiMicroRna	144
AHMassBank	56
AIMS	420
airpart	70
alabaster	52
alabaster.base	1300
alabaster.bumpy	92
alabaster.files	46
alabaster.mae	96
alabaster.matrix	1274
alabaster.ranges	1242
alabaster.sce	469
alabaster.schemas	1135
alabaster.se	1180
alabaster.spatial	91
alabaster.string	108
alabaster.vcf	99
ALDEx2	1190
alevinQC	89
AllelicImbalance	110
AlphaBeta	60
AlphaMissenseR	29
alpine	37
ALPS	5
AlpsNMR	71
alsace	18
altcdfenvs	130
AMARETTO	172
AMOUNTAIN	101
amplican	90
ampliQueso	14
AnalysisPageServer	10
anamiR	9
Anaquin	63
ANCOMBC	1237
AneuFinder	95
ANF	59
animalcules	174
annaffy	277
AnnBuilder	4
annmap	121
annotate	17931
AnnotationDbi	36294
AnnotationFilter	10931
AnnotationForge	2311
AnnotationFuncs	24
AnnotationHub	11646
AnnotationHubData	371
annotationTools	138
annotatr	479
anota	95
anota2seq	85
antiProfiles	72
AnVIL	564
AnVILAz	4
AnVILBase	8
AnVILBilling	54
AnVILGCP	2
AnVILPublish	64
AnVILWorkflow	47
APAlyzer	77
apComplex	79
apeglm	3545
APL	172
applera	1
appreci8R	98
aroma.light	1993
ArrayExpress	442
ArrayExpressHTS	23
arrayMagic	3
arrayMvout	75
arrayQCplot	1
arrayQuality	140
arrayQualityMetrics	483
ArrayTools	25
ArrayTV	20
ARRmNormalization	73
artMS	85
ASAFE	60
ASEB	73
ASGSCA	67
ASICS	95
asmn	4
ASpediaFI	9
ASpli	109
AssessORF	115
ASSET	115
ASSIGN	124
ASURAT	67
ATACCoGAPS	50
ATACseqQC	377
ATACseqTFEA	66
atena	114
AtlasRDF	10
atSNP	83
attract	87
AUCell	2336
autonomics	57
Autotuner	7
AWFisher	67
awst	56
BaalChIP	68
BAC	21
bacon	111
BADER	72
BadRegionFinder	65
BAGS	77
ballgown	660
bambu	281
bamsignals	1074
BANDITS	118
bandle	62
Banksy	60
banocc	87
barcodetrackR	60
basecallQC	73
BaseSpaceR	74
Basic4Cseq	76
BASiCS	166
BASiCStan	88
BasicSTARRseq	64
basilisk	4215
basilisk.utils	3874
batchelor	3936
BatchQC	110
BayesKnockdown	62
BayesPeak	22
BayesSpace	241
bayNorm	88
baySeq	466
BBCAnalyzer	66
BCRANK	82
bcSeq	66
BDMMAcorrect	31
beachmat	15670
beachmat.hdf5	79
beadarray	730
beadarraySNP	53
BeadDataPackR	639
BeadExplorer	2
BEARscc	61
BEAT	70
BEclear	78
beer	60
benchdamic	85
BERT	23
betaHMM	22
betr	15
bettr	21
BG2	54
bgafun	19
BgeeCall	51
BgeeDB	136
BGmix	22
bgx	78
BHC	86
BicARE	144
BiFET	64
BiGGR	76
bigmelon	72
bigmemoryExtras	19
bigPint	24
bim	2
BindingSiteFinder	64
bioassayR	83
Biobase	48279
biobroom	211
biobtreeR	55
bioCancer	80
BioCartaImage	43
BiocBaseUtils	6168
BiocBook	53
BiocCaseStudies	23
BiocCheck	1639
biocDatasets	3
BiocDockerManager	13
BiocFHIR	52
BiocFileCache	26385
BiocGenerics	56771
biocGraph	219
BiocHail	39
BiocHubsShiny	84
BiocInstaller	384
BiocIO	19869
BiocNeighbors	10701
BiocOncoTK	81
BioCor	85
BiocParallel	41647
BiocPkgTools	155
biocroxytest	31
BiocSet	291
BiocSingular	12383
BiocSklearn	76
BiocStyle	6215
biocthis	247
BiocVersion	59696
biocViews	4314
BiocWorkflowTools	176
biodb	193
biodbChebi	88
biodbExpasy	53
biodbHmdb	67
biodbKegg	71
biodbLipidmaps	43
biodbMirbase	27
biodbNcbi	54
biodbNci	61
biodbUniprot	53
bioDist	262
BioGA	2
biomaRt	23609
BioMedR	3
biomformat	5546
BioMM	14
BioMVCClass	73
biomvRCNS	73
BioNAR	71
BioNERO	309
BioNet	284
BioNetStat	85
BioQC	126
BioSeqClass	22
biosigner	99
Biostrings	47143
biosvd	19
BioTIP	79
biotmle	66
biovizBase	5478
BiRewire	131
birta	22
birte	8
biscuiteer	75
BiSeq	153
BitSeq	27
blacksheepr	72
blima	64
BLMA	76
BloodGen3Module	156
bluster	5342
bnbc	174
bnem	66
BOBaFIT	62
borealis	58
BPRMeth	104
BRAIN	125
brainflowprobes	45
brainImageR	2
BrainSABER	9
BrainStars	19
branchpointer	86
breakpointR	66
brendaDb	57
BREW3R.r	19
BRGenomics	131
bridge	23
BridgeDbR	83
broadSeq	4
BrowserViz	174
BrowserVizDemo	4
BSgenome	16634
BSgenomeForge	127
bsseq	1463
BubbleTree	79
BufferedMatrix	100
BufferedMatrixMethods	72
bugsigdbr	161
BUMHMM	87
bumphunter	2819
BumpyMatrix	556
BUS	66
BUScorrect	58
BUSpaRse	209
BUSseq	59
CaDrA	41
CAEN	48
CAFE	81
CAGEfightR	218
cageminer	66
CAGEr	186
CALIB	24
calm	48
CAMERA	505
CAMTHC	5
CaMutQC	21
canceR	101
cancerclass	155
CancerInSilico	21
CancerMutationAnalysis	21
CancerSubtypes	90
CAnD	13
caOmicsV	9
cardelino	67
Cardinal	191
CardinalIO	152
CARNIVAL	147
casper	70
CATALYST	558
Category	1871
categoryCompare	83
CausalR	69
cbaf	69
CBEA	122
cBioPortalData	435
CBNplot	143
cbpManager	57
ccfindR	96
ccImpute	55
ccmap	85
CCPlotR	57
CCPROMISE	69
ccrepe	108
CDI	41
celaref	76
celda	729
CellaRepertorium	45
CellBarcode	69
cellbaseR	84
CellBench	132
cellGrowth	17
cellHTS	15
cellHTS2	228
CelliD	244
cellity	69
CellMapper	70
cellmigRation	52
CellMixS	82
CellNOptR	197
cellscape	54
CellScore	60
CellTrails	62
cellTree	16
cellxgenedp	98
CEMiTool	143
censcyt	61
Cepo	200
ceRNAnetsim	51
CeTF	87
CexoR	74
CFAssay	56
cfdnakit	54
cfDNAPro	76
cfTools	51
CGEN	70
CGHbase	436
CGHcall	399
cghMCR	80
CGHnormaliter	78
CGHregions	94
ChAMP	612
CHARGE	8
charm	23
ChemmineOB	318
ChemmineR	825
CHETAH	98
ChIC	16
Chicago	97
chihaya	70
chimera	24
chimeraviz	114
ChIPanalyser	69
ChIPComp	71
chipenrich	165
ChIPexoQual	75
ChIPpeakAnno	1038
ChIPQC	366
ChIPseeker	1833
chipseq	638
ChIPseqR	95
ChIPSeqSpike	11
ChIPsim	91
ChIPXpress	95
chopsticks	100
chroGPS	19
chromDraw	63
ChromHeatMap	132
ChromoViz	3
chromPlot	193
ChromSCape	67
chromstaR	94
chromswitch	21
chromVAR	1145
CHRONOS	68
cicero	218
CIMICE	55
CINdex	74
circRNAprofiler	80
CircSeqAlignTk	59
cisPath	62
CiteFuse	89
ClassifyR	345
cleanUpdTSeq	113
CleanUpRNAseq	2
cleaver	210
clevRvis	61
clippda	75
clipper	104
cliProfiler	53
cliqueMS	128
Clomial	62
Clonality	28
clonotypeR	24
clst	99
clstutils	66
CluMSID	71
ClustAll	27
clustComp	68
clusterExperiment	345
ClusterFoldSimilarity	22
ClusterJudge	63
clusterProfiler	18628
clusterSeq	62
ClusterSignificance	63
clusterStab	90
clustifyr	147
ClustIRR	52
CMA	125
cmapR	404
CNAnorm	72
CNEr	3406
cn.farms	72
cn.mops	265
CNORdt	73
CNORfeeder	80
CNORfuzzy	78
CNORode	96
CNPBayes	9
CNTools	142
CNVfilteR	65
CNVgears	31
cnvGSA	76
CNViz	59
CNVMetrics	55
CNVPanelizer	69
CNVRanger	123
CNVrd2	72
CNVtools	17
cobindR	18
CoCiteStats	67
COCOA	81
codelink	87
CODEX	115
coexnet	15
CoGAPS	314
cogena	91
cogeqc	72
Cogito	51
coGPS	67
COHCAP	54
cola	129
comapr	62
combi	92
coMET	86
coMethDMR	67
compartmap	34
COMPASS	87
compcodeR	90
compEpiTools	78
CompGO	16
ComplexHeatmap	14724
CompoundDb	265
ComPrAn	57
compSPOT	36
conclus	7
concordexR	73
condcomp	3
condiments	95
CONFESS	80
consensus	54
ConsensusClusterPlus	3041
consensusDE	72
consensusOV	124
consensusSeekeR	103
consICA	159
CONSTANd	53
contiBAIT	48
conumee	165
convert	154
copa	68
COPDSexualDimorphism	3
copynumber	133
CopyNumber450k	8
CopyNumberPlots	161
CopywriteR	30
coRdon	183
CoRegFlux	3
CoRegNet	40
CoreGx	370
Cormotif	75
CorMut	18
coRNAi	16
corral	81
CORREP	49
coseq	147
CoSIA	54
cosmiq	113
cosmo	4
cosmoGUI	5
cosmosR	77
COSNet	58
COTAN	85
CountClust	14
countsimQC	240
covEB	57
CoverageView	75
covRNA	64
cpvSNP	66
cqn	300
CRImage	90
CRISPRball	37
crisprBase	163
crisprBowtie	157
crisprBwa	60
crisprDesign	141
crisprScore	168
CRISPRseek	168
crisprseekplus	30
crisprShiny	24
CrispRVariants	141
crisprVerse	83
crisprViz	122
crlmm	287
CrossICC	3
crossmeta	179
CSAR	86
csaw	592
csdR	49
CSSP	23
CSSQ	53
ctc	285
CTdata	48
CTDquerier	60
CTexploreR	24
ctgGEM	6
cTRAP	74
ctsGE	65
CTSV	60
cummeRbund	238
CuratedAtlasQueryR	63
customCMPdb	70
customProDB	97
CVE	8
cyanoFilter	56
cycle	72
cydar	96
cypress	20
CytoDx	80
cytofast	5
cytofkit	24
CyTOFpower	55
cytofQC	65
CytoGLMM	99
cytoKernel	66
cytolib	2764
cytomapper	330
CytoMDS	20
cytoMEM	98
CytoML	459
CytoPipeline	100
CytoPipelineGUI	40
CytoTree	14
cytoviewer	103
dada2	2250
dagLogo	93
daMA	68
DAMEfinder	64
DaMiRseq	127
Damsel	11
DAPAR	143
dar	22
DART	72
DASC	1
DASiR	11
dasper	13
DAVIDQuery	9
DBChIP	22
dcanr	146
DCATS	63
dce	71
dcGSA	58
DChIPRep	12
ddCt	100
ddgraph	14
ddPCRclust	79
dearseq	210
debCAM	65
debrowser	176
DECIPHER	2876
deco	11
DEComplexDisease	12
decompTumor2Sig	138
DeconRNASeq	244
decontam	1696
decontX	140
deconvR	71
decoupleR	1055
DEDS	20
DeepBlueR	39
DeepPINCS	84
deepSNV	167
DeepTarget	4
DEFormats	253
DegCre	21
DegNorm	59
DEGraph	73
DEGreport	610
DEGseq	163
DelayedArray	42204
DelayedDataFrame	68
DelayedMatrixStats	16212
DelayedRandomArray	92
DelayedTensor	54
DELocal	78
deltaCaptureC	57
deltaGseg	63
DeMAND	55
DeMixT	99
demuxmix	244
demuxSNP	48
densvis	2414
DEP	510
DepecheR	72
DepInfeR	49
DeProViR	24
DEqMS	231
derfinder	578
derfinderHelper	575
derfinderPlot	153
DEScan2	74
DESeq	205
DESeq2	21641
DEsingle	249
DESpace	62
destiny	680
DEsubs	64
DEWSeq	64
DExMA	66
DEXSeq	1510
dexus	23
DFP	73
DIAlignR	57
DiffBind	1080
diffcoexp	211
diffcyt	422
DifferentialRegulation	60
diffGeneAnalysis	66
diffHic	113
DiffLogo	71
diffloop	29
diffuStats	77
diffUTR	59
diggit	61
Dino	60
dinoR	19
Director	49
dir.expiry	3882
DirichletMultinomial	4765
discordant	87
DiscoRhythm	69
distinct	265
dittoSeq	1450
divergence	49
dks	58
DMCFB	57
DMCHMM	59
DMRcaller	89
DMRcate	928
DMRforPairs	27
DMRScan	52
dmrseq	213
DNABarcodeCompatibility	49
DNABarcodes	170
DNAcopy	5233
DNAfusion	54
DNaseR	5
DNAshapeR	83
domainsignatures	17
DominoEffect	65
doppelgangR	180
DOQTL	12
Doscheda	68
DOSE	18261
doseR	55
doubletrouble	69
dpeak	20
drawProteins	211
dreamlet	67
DRIMSeq	309
DriverNet	65
DropletUtils	2602
drugTargetInteractions	63
DrugVsDisease	143
dSimer	8
DSS	873
dStruct	52
DTA	90
dualKS	23
Dune	49
DupChecker	7
dupRadar	119
dyebias	72
DynDoc	1299
easier	139
EasyCellType	64
easylift	47
EasyqpcR	19
easyreporting	57
easyRNASeq	194
EBarrays	227
EBcoexpress	83
EBImage	2702
EBSEA	57
EBSeq	394
EBSeqHMM	43
ecolitk	77
EDASeq	1797
edd	7
EDDA	19
edge	106
edgeR	23377
EDIRquery	43
eds	383
eegc	86
EGAD	70
EGSEA	188
eiR	73
eisa	21
eisaR	117
ELBOW	18
ELMER	180
EMDomics	78
EmpiricalBrownsMethod	137
ENCODExplorer	11
EnhancedVolcano	4482
enhancerHomologSearch	58
EnMCB	63
ENmix	238
EnrichedHeatmap	574
EnrichmentBrowser	591
enrichplot	17784
enrichTF	63
enrichViewNet	52
ensembldb	10162
ensemblVEP	166
ENVISIONQuery	17
epialleleR	62
EpiCompare	38
epidecodeR	51
EpiDISH	629
epigenomix	71
epigraHMM	66
epihet	11
EpiMix	54
epimutacions	64
epiNEM	154
epiregulon	23
epiregulon.extra	22
epistack	54
epistasisGA	48
EpiTxDb	85
epivizr	139
epivizrChart	67
epivizrData	140
epivizrServer	148
epivizrStandalone	67
erccdashboard	83
erma	104
ERSSA	63
esATAC	94
escape	419
escheR	122
esetVis	77
eudysbiome	54
evaluomeR	60
EventPointer	73
EWCE	197
ExCluster	49
ExiMiR	69
exomeCopy	285
exomePeak	22
exomePeak2	93
exonmap	5
ExperimentHub	7573
ExperimentHubData	298
ExperimentSubset	73
explorase	18
ExploreModelMatrix	170
ExpressionAtlas	210
ExpressionView	22
exprExternal	0
externalVector	5
extraChIPs	85
fabia	191
facopy	8
factDesign	73
factR	58
faers	31
FamAgg	81
famat	63
farms	45
fastLiquidAssociation	64
FastqCleaner	87
fastreeR	77
fastseg	765
fbat	4
FCBF	43
fCCAC	63
fCI	60
fcoex	68
fcScan	68
fdrame	69
FEAST	117
FeatSeekR	44
fedup	54
FELLA	133
FEM	23
fenr	47
ffpe	79
fgga	54
FGNet	119
fgsea	17111
FilterFFPE	62
findIPs	24
FindIT2	58
FindMyFriends	14
FISHalyseR	57
fishpond	259
FitHiC	74
flagme	64
FLAMES	80
flipflop	17
flowAI	557
flowBeads	71
flowBin	75
flowcatchR	75
flowCHIC	67
flowCL	23
flowClean	206
flowClust	823
flowCore	2881
flowCut	108
flowCyBar	60
flowDensity	271
flowFit	19
flowFlowJo	10
flowFP	169
flowGate	79
flowGraph	53
flowMap	46
flowMatch	77
flowMeans	164
flowMerge	148
flowPeaks	184
flowPhyto	7
flowPloidy	70
flowPlots	65
flowQ	15
flowQB	22
FlowRepositoryR	13
FlowSOM	1108
flowSpecs	81
flowSpy	5
flowStats	516
flowTime	70
flowTrans	98
flowType	21
flowUtils	45
flowViz	1047
flowVS	105
flowWorkspace	1269
fmcsR	275
fmrs	124
fobitools	62
focalCall	9
FoldGO	33
FourCSeq	13
FRASER	120
frenchFISH	45
FRGEpistasis	64
frma	154
frmaTools	86
FScanR	20
FunChIP	52
FunciSNP	19
funOmics	4
funtooNorm	68
FuseSOM	55
GA4GHclient	116
GA4GHshiny	71
gaga	114
gage	831
gaggle	49
gaia	27
GAPGOM	10
GAprediction	64
garfield	62
GARS	65
GateFinder	67
gatom	46
gaucho	14
GBScleanR	75
gcapc	61
gcatest	74
gCMAP	21
gCMAPWeb	18
gCrisprTools	66
gcrma	1330
GCSConnection	5
GCSFilesystem	6
GCSscore	19
GDCRNATools	306
gDNAx	61
gDR	44
gDRcore	88
gDRimport	91
gDRstyle	79
gDRutils	109
GDSArray	192
gdsfmt	2054
GeDi	30
geecc	12
GEM	63
gemini	55
gemma.R	68
genArise	65
genbankr	99
gene2pathway	6
GeneAccord	10
GeneAnswers	27
geneAttribution	70
GeneBreak	70
geneClassifiers	55
GENE.E	14
GeneExpressionSignature	91
genefilter	12657
genefu	422
GeneGA	58
GeneGeneInteR	62
GeneGroupAnalysis	3
GeneMeta	112
GeneNetworkBuilder	85
GeneOverlap	481
geneplast	109
geneplotter	6229
GeneR	7
geneRecommender	66
GeneRegionScan	74
GeneRfold	3
geneRxCluster	71
GeneSelectMMD	114
GeneSelector	20
GENESIS	357
GeneSpring	5
GeneStructureTools	88
geNetClassifier	155
GeneticsBase	4
GeneticsDesign	19
GeneticsPed	108
GeneTonic	315
GeneTraffic	5
GeneTS	3
geneXtendeR	114
GENIE3	1198
genoCN	63
GenoGAM	13
genomation	670
GenomAutomorphism	43
GenomeBase	1
GenomeGraphs	27
GenomeInfoDb	58151
genomeIntervals	189
genomes	82
GenomicAlignments	24262
GenomicDataCommons	1154
GenomicDistributions	102
GenomicFeatures	20133
GenomicFiles	1328
genomicInstability	61
GenomicInteractionNodes	51
GenomicInteractions	394
GenomicOZone	79
GenomicPlot	70
GenomicRanges	43959
GenomicScores	708
GenomicSuperSignature	68
GenomicTuples	60
Genominator	23
genoset	26
genotypeeval	20
GenoView	2
genphen	11
GenProSeq	46
GenRank	8
GenVisR	275
GeoDiff	76
GEOexplorer	66
GEOfastq	81
GEOmetadb	255
GeomxTools	411
GEOquery	9436
GEOsearch	5
GEOsubmission	74
GeoTcgaData	121
gep2pep	59
gespeR	90
getDEE2	53
geva	50
GEWIST	57
gff3Plotter	2
gg4way	46
GGBase	27
ggbio	2145
ggcyto	891
ggkegg	318
ggmanh	198
ggmsa	523
GGPA	51
ggsc	63
ggseqalign	4
ggspavis	170
GGtools	28
ggtree	20802
ggtreeDendro	62
ggtreeExtra	1044
ggtreeSpace	20
GIGSEA	50
ginmappeR	21
gINTomics	13
girafe	100
GISPA	41
GLAD	225
GladiaTOX	54
Glimma	1178
glmGamPoi	4378
glmSparseNet	192
GlobalAncova	1116
globalSeq	59
globaltest	1907
GloScope	47
gmapR	181
GmicR	68
gmoviz	57
GMRP	60
GNET2	55
GNOSIS	55
goCluster	1
GOexpress	91
GOfuncR	337
GOFunction	21
GoogleGenomics	7
GOpro	160
goProfiles	135
GOSemSim	17303
goseq	1288
GOSim	109
goSorensen	65
goSTAG	68
GOstats	1699
GOsummaries	49
GOTHiC	85
goTools	74
GPA	54
gpart	18
gpls	223
gprege	18
gpuMagic	57
gQTLBase	16
gQTLstats	15
GrafGen	20
gramm4R	5
GRaNIE	134
granulator	121
graper	56
graph	18834
GraphAlignment	66
GraphAT	77
graphite	3051
GraphPAC	111
GRENITS	65
GreyListChIP	1013
GRmetrics	89
groHMM	82
GRridge	16
GSALightning	57
GSAR	106
GSCA	68
gscreend	49
GSEABase	8923
GSEABenchmarkeR	87
GSEAlm	89
GSEAmining	69
gsean	66
GSgalgoR	54
GSReg	70
GSRI	72
GSVA	6418
gtrellis	136
GUIDEseq	86
Guitar	134
Gviz	3862
GWAS.BAYES	61
gwascat	650
GWASTools	609
gwasurvivr	97
GWENA	238
gypsum	975
h5vc	97
hapFabia	67
Harman	178
HarmonizR	57
Harshlight	83
hca	64
HCABrowser	5
HCAExplorer	4
HCAMatrixBrowser	2
HCsnip	14
HDF5Array	13745
HDTD	53
hdxmsqc	8
heatmaps	290
Heatplus	454
HelloRanges	138
HELP	67
HEM	67
hermes	149
HERON	41
Herper	147
hexbin	28
HGC	68
hiAnnotator	115
HIBAG	129
HicAggR	19
HiCBricks	151
HiCcompare	276
HiCDCPlus	88
HiCDOC	107
HiCExperiment	153
HiContacts	106
HiCool	68
hicrep	11
hicVennDiagram	46
hierGWAS	66
hierinf	47
HilbertCurve	98
HilbertVis	188
HilbertVisGUI	45
HiLDA	76
hipathia	179
HIPPO	51
hiReadsProcessor	73
HIREewas	55
HiTC	143
hmdbQuery	78
HMMcopy	292
HoloFoodR	3
hoodscanR	60
hopach	342
HPAanalyze	131
hpar	275
HPAStainR	10
HPiP	56
HTqPCR	149
HTSanalyzeR	23
HTSeqGenie	60
htSeqTools	21
HTSFilter	222
HubPub	117
HumanTranscriptomeCompendium	53
hummingbird	49
HybridExpress	35
HybridMTest	137
hypeR	96
hyperdraw	124
hypergraph	173
iASeq	60
iasva	69
iBBiG	128
ibh	63
iBMQ	53
iCARE	144
Icens	478
icetea	61
iCheck	63
iChip	66
iClusterPlus	379
iCNV	66
iCOBRA	215
ideal	105
IdeoViz	76
idiogram	71
IdMappingAnalysis	16
IdMappingRetrieval	19
idpr	69
idr2d	58
IFAA	50
iFlow	3
iGC	64
IgGeneUsage	54
igvR	120
igvShiny	25
IHW	698
illuminaio	2992
ILoReg	48
imageHTS	29
IMAS	65
imcRtools	227
Imetagene	11
IMMAN	56
ImmuneSpaceR	56
immunoClust	74
immunogenViewer	1
immunotation	55
IMPCdata	53
ImpulseDE	7
ImpulseDE2	14
impute	10569
INDEED	49
iNETgrate	50
infercnv	1089
infinityFlow	79
Informeasure	45
InPAS	74
INPower	69
inSilicoDb	15
inSilicoMerging	16
INSPEcT	77
INTACT	51
InTAD	62
intansv	87
interacCircos	65
InteractionSet	1930
InteractiveComplexHeatmap	411
interactiveDisplay	110
interactiveDisplayBase	8934
InterCellar	77
IntEREst	78
InterMineR	94
IntOMICS	28
IntramiRExploreR	55
inveRsion	19
IONiseR	82
iontree	16
iPAC	138
iPath	46
ipdDb	160
IPO	159
IPPD	18
IRanges	52272
IRISFGM	72
IrisSpatialFeatures	4
ISAnalytics	60
iSEE	471
iSEEde	64
iSEEfier	22
iSEEhex	146
iSEEhub	163
iSEEindex	54
iSEEpathways	51
iSEEtree	3
iSEEu	114
iSeq	60
ISLET	54
iSNetwork	2
isobar	91
IsoBayes	42
IsoCorrectoR	118
IsoCorrectoRGUI	62
IsoformSwitchAnalyzeR	264
IsoGeneGUI	22
ISoLDE	49
isomiRs	175
iSPlot	2
ITALICS	71
iterativeBMA	70
iterativeBMAsurv	61
iterClust	43
iteremoval	11
IVAS	86
ivygapSE	58
IWTomics	72
jmosaics	10
joda	18
JunctionSeq	15
karyoploteR	855
katdetectr	68
KBoost	46
KCsmart	72
kebabs	153
KEGGgraph	5586
KEGGlincs	76
keggorth	3
keggorthology	198
KEGGprofile	27
KEGGREST	36853
KEGGSOAP	10
kimod	8
KinSwingR	58
kissDE	68
kmcut	1
KnowSeq	63
knowYourCG	18
LACE	164
lapmix	64
LBE	227
ldblock	93
LEA	525
LedPred	51
lefser	568
lemur	68
les	103
levi	51
lfa	292
limma	32245
limmaGUI	87
limpca	21
LINC	10
LineagePulse	36
lineagespot	53
LinkHD	61
Linnorm	234
LinTInd	55
lionessR	57
lipidr	187
LiquidAssociation	93
lisaClust	140
lmdme	65
LMGene	21
LOBSTAHS	103
loci2path	64
logicFS	95
logitT	32
Logolas	10
lol	14
LOLA	296
LoomExperiment	616
LowMACA	19
LPE	98
LPEadj	43
lpNet	80
lpsymphony	1022
LRBaseDbi	126
LRcell	52
lumi	1198
lute	22
LVSmiRNA	20
LymphoSeq	72
M3C	703
M3D	11
M3Drop	662
m6Aboost	48
maanova	29
Maaslin2	1025
Macarron	102
macat	50
maCorrPlot	63
MACPET	12
MACSQuantifyR	47
MACSr	111
maDB	6
made4	272
MADSEQ	63
maftools	2538
MAGAR	167
MAGeCKFlute	376
magpie	54
magrene	53
MAI	62
maigesPack	46
MAIT	108
makecdfenv	188
makePlatformDesign	4
MANOR	69
manta	20
MantelCorr	58
MAPFX	24
mAPKL	16
maPredictDSC	68
mapscape	56
mariner	61
marr	57
marray	1920
martini	62
maser	134
maSigPro	263
maskBAD	70
MassArray	59
massiR	66
MassSpecWavelet	1938
MAST	2104
mastR	161
matchBox	62
matchprobes	4
MatrixGenerics	39745
MatrixQCvis	171
MatrixRider	69
matter	223
MaxContrastProjection	11
MBAmethyl	48
MBASED	63
MBCB	62
MBECS	76
mbkmeans	426
mbOmic	8
mBPCR	67
MBQN	60
mbQTL	51
MBttest	56
mcaGUI	20
MCbiclust	61
MCRestimate	20
mCSEA	112
mdgsa	13
mdp	58
mdqc	109
MDTS	54
MEAL	88
MeasurementError.cor	62
MEAT	52
MEB	53
MEDIPS	119
MEDME	64
megadepth	128
MEIGOR	63
Melissa	57
memes	211
MergeMaid	23
Mergeomics	71
MeSHDbi	268
meshes	157
meshr	150
MeSHSim	4
MesKit	79
messina	65
metaArray	22
Metab	71
metabCombiner	72
metabinR	46
MetaboAnnotation	251
MetaboCoreUtils	1750
metabolomicsWorkbenchR	85
metabomxtr	63
MetaboSignal	130
metaCCA	163
MetaCyto	82
metagene	29
metagene2	73
metagenomeFeatures	12
metagenomeSeq	1686
metahdep	65
metaMS	144
MetaNeighbor	96
MetaPhOR	66
metapod	4865
metapone	63
metaSeq	75
metaseqR	23
metaseqR2	71
metavizr	15
MetaVolcanoR	50
metaX	2
MetCirc	82
MethCP	8
methimpute	67
methInheritSim	76
methodical	19
MethPed	60
MethReg	69
methrix	88
MethTargetedNGS	58
methVisual	20
methyAnalysis	26
MethylAid	100
methylCC	75
methylclock	153
methylGSA	120
methyLImp2	21
methylInheritance	69
methylKit	641
MethylMix	101
methylMnM	81
methylPipe	137
methylscaper	84
MethylSeekR	142
methylSig	80
methylumi	1517
methyvim	10
MetID	58
MetNet	58
mfa	94
Mfuzz	1263
MGFM	69
MGFR	73
MGnifyR	26
mgsa	113
mia	1509
miaSim	88
miaViz	246
MiChip	64
microbiome	1694
microbiomeDASim	63
microbiomeExplorer	85
microbiomeMarker	395
MicrobiomeProfiler	123
MicrobiotaProcess	524
microRNA	163
microSTASIS	51
MICSQTL	45
midasHLA	57
MIGSA	16
miloR	297
mimager	72
MIMOSA	29
mina	48
MineICA	85
minet	818
minfi	2439
MinimumDistance	93
MiPP	73
miQC	111
MIRA	121
MiRaGE	77
miRBaseConverter	103
miRcomp	62
mirIntegrator	74
MIRit	35
miRLAB	79
miRmine	41
miRNAmeConverter	64
miRNApath	72
miRNAtap	162
miRSM	48
miRsponge	7
miRspongeR	43
Mirsynergy	15
mirTarRnaSeq	68
missMethyl	996
missRows	57
mistyR	91
mitch	65
mitoClone2	77
mitoODE	16
mixOmics	2683
MLInterfaces	440
mlm4omics	3
MLP	160
MLSeq	165
MMAPPR2	19
MMDiff	12
MMDiff2	59
mmgmos	2
mmnet	12
MmPalateMiRNA	21
MMUPHin	135
mnem	158
moanin	175
mobileRNA	22
MobilityTransformR	75
MODA	64
ModCon	47
Modstrings	210
MOFA	7
MOFA2	486
MOGAMUN	55
mogsa	206
MoleculeExperiment	75
MOMA	60
monaLisa	150
monocle	3187
Moonlight2R	55
MoonlightR	88
MoPS	10
mosaics	162
mosbi	51
mosdef	20
MOSim	62
Motif2Site	52
motifbreakR	214
motifcounter	63
MotifDb	668
motifmatchr	1354
motifRG	20
motifStack	731
motifTestR	33
MotIV	35
MouseFM	155
MPAC	4
MPFE	51
mpra	68
MPRAnalyze	72
MQmetrics	34
mQTL.NMR	8
msa	1608
MSA2dist	128
MsBackendMassbank	82
MsBackendMgf	448
MsBackendMsp	349
MsBackendRawFileReader	66
MsBackendSql	72
MsCoreUtils	3720
MsDataHub	69
MSEADbi	4
MsExperiment	1372
MsFeatures	1692
msgbsR	69
MSGFgui	13
MSGFplus	17
msImpute	165
mslp	42
msmsEDA	288
msmsTests	277
MSnbase	3336
MSnID	296
MSPrep	161
msPurity	83
msqrob2	150
MsQuality	67
MSstats	499
MSstatsBig	41
MSstatsConvert	464
MSstatsLiP	84
MSstatsLOBD	60
MSstatsPTM	201
MSstatsQC	84
MSstatsQCgui	50
MSstatsSampleSize	18
MSstatsShiny	107
MSstatsTMT	291
MSstatsTMTPTM	4
MTseeker	3
MuData	62
Mulcom	80
MultiAssayExperiment	5884
MultiBaC	77
multiClust	94
multicrispr	64
MultiDataSet	1285
multiGSEA	141
multiHiCcompare	169
MultiMed	62
multiMiR	234
MultimodalExperiment	43
multiOmicsViz	41
MultiRNAflow	63
multiscan	64
multiSight	63
multistateQTL	18
multiWGCNA	69
multtest	12571
mumosa	74
MungeSumstats	1073
muscat	495
muscle	334
musicatk	87
MutationalPatterns	323
MVCClass	109
mvGST	7
MWASTools	164
mygene	343
myvariant	90
mzID	3194
mzR	3433
NADfinder	68
NanoMethViz	87
NanoStringDiff	95
NanoStringNCTools	402
NanoStringQCPro	35
nanotatoR	93
NanoTube	84
NarrowPeaks	20
NBAMSeq	142
NBSplice	12
ncdfFlow	1131
ncGTW	96
NCIgraph	120
ncRNAtools	54
ndexr	73
neaGUI	9
nearBynding	54
Nebulosa	1086
NeighborNet	21
nem	25
nempi	63
NetActivity	49
netbenchmark	10
netbiov	34
netboost	46
netboxr	10
netDx	48
nethet	73
netOmics	32
NetPathMiner	65
netprioR	53
netReg	8
netresponse	80
NetSAM	96
netSmooth	70
networkBMA	21
netZooR	65
NeuCA	40
NewWave	123
NGScopy	9
ngsReports	78
nipalsMCIA	46
nnNorm	68
nnSVG	120
NOISeq	600
nondetects	62
NoRCE	55
normalize450K	56
NormalyzerDE	174
NormqPCR	168
normr	139
NPARC	73
npGSEA	70
NTW	64
nucleoSim	61
nucleR	88
nuCpos	56
nudge	14
nullranges	181
NuPoP	76
NxtIRFcore	11
occugene	59
OCplus	89
octad	61
ODER	8
odseq	69
OGRE	60
OGSA	9
oligo	1686
oligoClasses	1714
OLIN	103
OLINgui	66
omada	47
OmaDB	243
omicade4	173
OmicCircos	189
omicplotR	64
omicRexposome	67
OmicsLonDA	16
OmicsMarkeR	10
OMICsPCA	69
omicsPrint	66
omicsViewer	54
Omixer	58
OmnipathR	562
ompBAM	109
Onassis	12
oncomix	57
oncoscanR	57
OncoScore	71
OncoSimulR	66
oneChannelGUI	23
oneSENSE	21
onlineFDR	49
ontoCAT	13
ontoProc	279
ontoTools	7
openCyto	669
openPrimeR	160
openPrimeRui	65
OpenStats	51
OperaMate	4
oposSOM	92
oppar	69
oppti	49
optimalFlow	64
OPWeight	58
OrderedList	86
ORFhunteR	55
ORFik	200
OrganismDbi	3202
Organism.dplyr	433
orthogene	331
orthos	45
OSAT	85
Oscope	95
OTUbase	72
OutlierD	22
OUTRIDER	213
OutSplice	51
OVESEG	68
PAA	73
packFinder	64
padma	58
PADOG	290
pageRank	58
PAIRADISE	90
paircompviz	68
pairedGSEA	51
pairkat	79
pairseqsim	2
pamr	7
pandaR	133
panelcn.mops	85
PAnnBuilder	20
PanomiR	71
panp	85
PANR	64
PanViz	44
PanVizGenerator	12
PAPi	21
pareg	56
parglms	57
parody	111
partCNV	41
PAST	52
Path2PPI	64
pathifier	112
pathlinkR	27
PathNet	75
PathoStat	124
pathprint	8
pathRender	75
pathVar	22
pathview	4466
pathwayPCA	80
PathwaySplice	8
PatientGeneSets	3
paxtoolsr	99
Pbase	13
pbcmc	6
pcaExplorer	463
pcaGoPromoter	19
pcaMethods	5340
PCAN	64
PCAtools	1227
pcot2	23
PCpheno	21
pcxn	53
PDATK	136
pdInfoBuilder	125
pdmclass	17
PeacoQC	235
peakPantheR	64
PECA	72
peco	53
Pedixplorer	19
pengls	45
PepSetTest	3
PepsNMR	140
pepStat	58
pepXMLTab	66
PERFect	34
periodicDNA	52
perturbatr	8
pfamAnalyzeR	257
PFP	11
PGA	13
pgca	53
PGSEA	57
pgUtils	4
pgxRpi	25
phantasus	202
phantasusLite	52
PharmacoGx	274
phemd	31
phenoDist	15
PhenoGeneRanker	44
phenomis	60
phenopath	91
phenoTest	145
PhenStat	66
philr	180
PhIPData	103
phosphonormalizer	54
PhosR	116
PhyloProfile	80
phyloseq	5511
Pi	64
piano	475
pickgene	60
PICS	124
Pigengene	125
PING	83
pint	16
pipeComp	59
pipeFrame	167
PIPETS	22
Pirat	4
PIUMA	21
pkgDepTools	29
planet	199
planttfhunter	72
plasmut	37
plateCore	19
plethy	26
plgem	122
plier	124
PloGO2	59
plotgardener	324
plotGrouper	54
PLPE	66
plrs	17
PLSDAbatch	36
plw	22
plyinteractions	56
plyranges	1275
pmm	64
pmp	120
PoDCall	50
podkat	68
pogos	64
polyester	125
Polyfit	13
PolySTest	3
POMA	133
POST	9
PoTRA	9
PowerExplorer	8
powerTCR	356
POWSC	66
ppcseq	59
PPInfer	176
ppiStats	25
pqsfinder	107
prada	30
pram	60
prebs	79
preciseTAD	65
PrecisionTrialDrawer	8
PREDA	91
predictionet	18
preprocessCore	14168
primirTSS	62
PrInCE	62
Prize	10
proActiv	69
proBAMr	61
proBatch	24
PROcess	99
procoil	69
ProCoNA	15
proDA	244
proFIA	16
profileplyr	227
profileScoreDist	54
progeny	432
projectR	111
pRoloc	268
pRolocGUI	95
PROMISE	112
PROPER	94
PROPS	60
Prostar	87
prot2D	14
proteasy	23
proteinProfiles	59
ProteoDisco	58
ProteomicsAnnotationHubData	13
ProteoMM	84
proteoQC	13
protGear	59
ProtGenerics	11909
PSEA	44
psichomics	80
PSICQUIC	28
PSMatch	990
psygenet2r	87
ptairMS	52
PubScore	6
pulsedSilac	7
puma	108
PureCN	168
pvac	65
pvca	250
Pviz	84
pwalign	1790
PWMEnrich	204
pwOmics	162
pwrEWAS	23
qckitfastq	71
qcmetrics	107
QDNAseq	378
QFeatures	2022
qmtools	56
qpcrNorm	75
qpgraph	189
qPLEXanalyzer	76
qrqc	29
qsea	70
qsmooth	188
QSutils	98
qsvaR	167
QTLExperiment	44
Qtlizer	58
QUALIFIER	22
quantiseqr	457
quantro	362
quantsmooth	624
QuartPAC	68
QuasR	360
QuaternaryProd	77
QUBIC	147
qusage	403
qvalue	17464
R3CPET	61
r3Cseq	94
R453Plus1Toolbox	87
R4RNA	638
RadioGx	69
raer	43
RaggedExperiment	919
RAIDS	45
rain	98
rama	21
RamiGO	15
ramr	50
ramwas	131
RandomWalkRestartMH	99
randPack	65
randRotation	47
RankProd	295
RAREsim	46
RareVariantVis	69
Rariant	20
Rarr	145
rawDiag	23
rawrr	216
RbcBook1	112
Rbec	61
RBGL	9452
RBioFormats	135
RBioinf	72
rBiopaxParser	172
rBLAST	46
RBM	65
Rbowtie	513
Rbowtie2	301
rbsurv	79
Rbwa	105
Rcade	24
RCAS	149
RCASPAR	58
rcellminer	77
rCGH	119
Rchemcpp	16
RchyOptimyx	19
RcisTarget	868
RCM	68
Rcollectl	30
Rcpi	121
RCSL	48
Rcwl	108
RcwlPipelines	107
RCX	96
RCy3	964
RCyjs	78
RCytoscape	15
RDAVIDWebService	36
Rdbi	7
RdbiPgSQL	4
rDGIdb	82
Rdisop	440
RDRToolbox	137
ReactomeContentService4R	118
ReactomeGraph4R	49
ReactomeGSA	230
ReactomePA	2479
readat	9
ReadqPCR	213
reb	19
REBET	56
rebook	140
receptLoss	47
reconsi	55
recount	407
recount3	299
recountmethylation	77
recoup	64
RedeR	337
RedisParam	48
REDseq	100
RefNet	17
RefPlus	46
RegEnrich	108
regionalpcs	60
RegionalST	54
regioneR	2008
regioneReloaded	59
regionReport	137
regsplice	59
regutools	80
REMP	75
Repitools	299
ReportingTools	685
reposTools	1
RepViz	110
ReQON	48
ResidualMatrix	3627
RESOLVE	58
Resourcerer	9
restfulSE	144
retrofit	47
ReUseData	56
rexposome	105
rfaRm	48
Rfastp	146
rflowcyt	6
rfPred	64
rGADEM	309
RGalaxy	22
rGenomeTracks	52
Rgin	8
RGMQL	54
RgnTX	50
rgoslin	82
RGraph2js	62
Rgraphviz	9867
rGREAT	662
RGSEA	75
rgsepd	56
rhdf5	19929
rhdf5client	159
rhdf5filters	19282
Rhdf5lib	24272
Rhisat2	227
Rhtslib	24919
rHVDM	18
RiboCrypt	57
RiboDiPA	55
RiboProfiling	98
ribor	54
riboSeqR	65
ribosomeProfilingQC	87
rifi	51
rifiComparative	48
RImmPort	50
Ringo	285
Rintact	2
RIPAT	26
RIPSeeker	30
Risa	145
RITAN	76
RIVER	59
RJMCMCNucleosomes	64
RLassoCox	60
RLMM	62
RLSeq	31
RMAGEML	4
Rmagpie	77
RMAPPER	7
RMassBank	112
rMAT	18
rmelting	68
RmiR	20
Rmmquant	63
rmspc	66
RNAAgeCalc	76
RNAdecay	44
rnaEditr	63
RNAinteract	86
RNAither	23
RNAmodR	118
RNAmodR.AlkAnilineSeq	67
RNAmodR.ML	60
RNAmodR.RiboMethSeq	70
RNAprobR	10
RNAsense	50
rnaseqcomp	69
RNAseqCovarImpute	41
rnaSeqMap	22
RNASeqPower	158
RNASeqR	9
RnaSeqSampleSize	101
RnBeads	291
Rnits	62
roar	71
roastgsa	41
ROC	1079
ROCpAI	49
RolDE	55
Roleswitch	19
Rolexa	12
rols	467
ROntoTools	218
ropls	1237
ROSeq	58
ROTS	219
RPA	114
rprimer	78
RProtoBufLib	2728
RpsiXML	27
rpx	302
Rqc	268
rqt	51
rqubic	91
rRDP	73
Rredland	3
RRHO	96
rrvgo	523
Rsamtools	23788
rsbml	159
rScudo	57
rsemmed	48
RSeqAn	100
rSFFreader	13
RSNPper	4
Rsubread	2253
RSVSim	72
rSWeeP	54
rTANDEM	21
RTCA	70
RTCGA	559
RTCGAToolbox	557
RTN	181
RTNduals	91
RTNsurvival	66
RTools4TB	3
RTopper	69
Rtpca	68
rtracklayer	21535
Rtreemix	72
rTRM	179
rTRMui	68
runibic	81
Ruuid	6
RUVcorr	64
RUVnormalize	77
RUVSeq	938
Rvisdiff	43
RVS	56
RWebServices	6
rWikiPathways	396
S4Arrays	38553
S4Vectors	56685
safe	651
SAGElyzer	3
sagenhaft	65
SAGx	26
SAIGEgds	93
samExploreR	9
sampleClassifier	72
SamSPECTRAL	155
sangeranalyseR	184
sangerseqR	941
SANTA	57
sapFinder	17
saps	3
SARC	42
sarks	50
saseR	30
satuRn	276
savR	25
SBGNview	207
sbgr	1
SBMLR	75
SC3	376
Scale4C	68
ScaledMatrix	12243
scAlign	17
scanMiR	91
scanMiRApp	54
scAnnotatR	179
SCAN.UPC	158
SCANVIS	66
SCArray	87
SCArray.sat	54
SCATE	68
scater	7167
scatterHatch	51
scBFA	62
SCBN	91
scBubbletree	57
scCB2	59
scClassifR	3
scClassify	80
sccomp	106
scDataviz	83
scDblFinder	1505
scDD	139
scDDboost	55
scde	361
scDesign3	59
scDotPlot	4
scds	515
SCFA	49
scFeatureFilter	56
scFeatures	68
scfind	7
scGPS	87
schex	231
scHOT	67
scider	47
scifer	57
ScISI	28
scMAGeCK	8
scmap	245
scMerge	561
scMET	52
scmeth	74
scMitoMut	19
scMultiSim	20
SCnorm	111
scone	117
Sconify	60
SCOPE	68
scoreInvHap	66
scp	176
scPCA	93
scPipe	140
scran	4811
scReClassify	64
scRecover	59
screenCounter	47
ScreenR	47
scRepertoire	427
scRNAseqApp	68
scruff	73
scry	238
scShapes	49
scsR	17
scTensor	128
scTGIF	199
scTHI	50
scTreeViz	55
scuttle	9777
scviR	52
SDAMS	61
seahtrue	1
sechm	158
segmenter	69
segmentSeq	82
selectKSigs	54
SELEX	67
SemDist	57
semisup	55
SemSim	3
SEPA	7
SEPIRA	23
seq2pathway	171
seqArchR	84
seqArchRplus	57
SeqArray	929
seqbias	75
seqCAT	70
seqCNA	43
seqcombo	61
SeqGate	56
SeqGSEA	192
seq.hotSPOT	43
seqLogo	3774
seqPattern	732
seqplots	17
seqsetvis	83
SeqSQC	140
seqTools	125
SeqVarTools	448
sesame	788
SEtools	188
sevenbridges	72
sevenC	57
SGCP	151
SGSeq	324
SharedObject	159
shinyepico	72
shiny.gosling	28
shinyMethyl	120
shinyTANDEM	16
ShortRead	6296
SIAMCAT	125
SICtools	52
sigaR	19
SigCheck	66
sigFeature	227
SigFuge	68
siggenes	3481
sights	60
signatureSearch	233
signeR	82
signet	7
signifinder	55
sigPathway	35
SigsPack	58
sigsquared	60
SIM	70
SIMAT	62
SimBindProfiles	54
SimBu	116
SIMD	57
SimFFPE	51
similaRpeak	66
SIMLR	246
simona	64
simPIC	19
simpleaffy	104
simpleSeg	71
simplifyEnrichment	822
simulatorAPMS	3
simulatorZ	13
sincell	65
single	46
SingleCellAlleleExperiment	36
SingleCellExperiment	15274
SingleCellSignalR	259
singleCellTK	294
SingleMoleculeFootprinting	64
SingleR	4100
singscore	1405
SiPSiC	51
SISPA	21
sitadela	52
sitePath	60
sizepower	77
SJava	5
sketchR	34
skewr	55
slalom	151
SLGI	25
slingshot	1484
slinky	8
SLqPCR	73
SMAD	54
SMAP	48
smartid	33
SMITE	64
smoothclust	26
SNAGEE	65
snapCGH	105
snapcount	62
snifter	138
snm	174
SNPchip	27
SNPediaR	56
SNPhood	68
snpMatrix	10
SNPRelate	1619
snpStats	2275
soGGi	347
sojourner	12
SomatiCA	13
SomaticSignatures	185
SOMNiBUS	62
SpaceMarkers	19
SpacePAC	106
spade	13
Spaniel	82
sparrow	209
SparseArray	32933
sparseDOSSA	32
sparseMatrixStats	15522
sparsenetgls	53
SparseSignatures	64
spaSim	65
SpatialCPie	77
spatialDE	108
SpatialDecon	197
SpatialExperiment	2633
SpatialFeatureExperiment	155
spatialHeatmap	214
SpatialOmicsOverlay	70
spatzie	50
speckle	182
specL	66
SpeCond	80
Spectra	1925
SpectralTAD	84
SPEM	86
SPIA	643
SPIAT	121
spicyR	186
SpidermiR	72
spikeLI	57
spiky	48
spillR	25
spkTools	64
splatter	463
splicegear	18
spliceR	18
spliceSites	18
SpliceWiz	105
SplicingFactory	48
SplicingGraphs	99
splineTCDiffExpr	0
splineTimeR	75
SPLINTER	67
splots	215
SPONGE	52
spoon	21
SpotClean	92
SPOTlight	248
spotSegmentation	17
SpotSweeper	19
spqn	51
SPsimSeq	185
SQLDataFrame	55
SQUADD	47
squallms	3
sRACIPE	68
SRAdb	428
sRAP	19
SRGnet	9
srnadiff	67
sscore	34
sscu	56
sSeq	179
ssize	102
sSNAPPY	157
SSPA	74
ssPATHS	50
ssrch	83
ssviz	64
stageR	181
stam	3
STAN	18
standR	127
staRank	68
StarBioTrek	46
Starr	20
STATegRa	67
Statial	72
statTarget	101
STdeconvolve	139
stepNorm	65
stepwiseCM	14
stJoincount	64
strandCheckR	59
Streamer	73
STRINGdb	1198
STROMA4	29
struct	157
Structstrings	162
structToolbox	114
StructuralVariantAnnotation	228
SubCellBarCode	60
subSeq	74
SUITOR	45
SummarizedBenchmark	44
SummarizedExperiment	38797
Summix	51
supersigs	100
supraHex	476
surfaltr	48
SurfR	20
survClust	5
survcomp	1176
survtype	58
Sushi	60
sva	7362
svaNUMT	63
SVAPLSseq	8
svaRetro	63
SVM2CRM	8
SVMDO	112
SWATH2stats	65
SwathXtend	73
swfdr	71
SwimR	13
switchBox	123
switchde	62
synapsis	46
synapter	144
synergyfinder	206
SynExtend	59
synlet	55
SynMut	54
syntenet	128
systemPipeR	1185
systemPipeShiny	68
systemPipeTools	62
tadar	56
TADCompare	85
tanggle	67
TAPseq	67
target	60
TargetDecoy	62
TargetScore	75
TargetSearch	81
TarSeqQC	16
TBSignatureProfiler	74
TCC	212
TCGAbiolinks	3840
TCGAbiolinksGUI	27
TCGAutils	853
TCseq	187
TDARACNE	22
TDbasedUFE	78
TDbasedUFEadv	57
TEKRABber	155
TENxIO	55
tenXplore	51
TEQC	85
ternarynet	62
terraTCGAdata	66
TFARM	56
TFBSTools	3424
TFEA.ChIP	77
TFHAZ	60
TFutils	87
tidybulk	278
tidyCoverage	23
tidyFlowCore	6
tidyomics	33
tidySingleCellExperiment	218
tidySpatialExperiment	29
tidySummarizedExperiment	366
tigre	84
TileDBArray	62
tilingArray	154
timecourse	85
timeOmics	86
timescape	82
TimeSeriesExperiment	12
TimiRGeN	51
TIN	57
TissueEnrich	213
TitanCNA	87
tkWidgets	1306
tLOH	50
TMixClust	77
TNBC.CMS	45
TnT	35
TOAST	396
tofsims	11
tomoda	55
tomoseqr	49
TOP	50
ToPASeq	11
topconfects	177
topdownr	82
topGO	3015
ToxicoGx	71
TPP	105
TPP2D	57
tpSVG	20
tracktables	145
trackViewer	522
tradeSeq	514
TrajectoryGeometry	45
TrajectoryUtils	1952
transcriptogramer	69
transcriptR	78
transformGamPoi	80
transite	68
tRanslatome	179
transmogR	22
transomics2cytoscape	64
TransView	64
TraRe	6
traseR	61
Travel	3
traviz	62
TreeAndLeaf	136
treeclimbR	22
treeio	19911
treekoR	60
TreeSummarizedExperiment	1785
TREG	50
trena	29
TReNA	1
Trendy	65
TRESS	99
tricycle	243
triform	22
trigger	72
trio	108
triplex	74
tripr	52
tRNA	148
tRNAdbImport	122
tRNAscanImport	78
TRONCO	79
TSAR	38
TSCAN	655
tscR	14
tspair	23
TSRchitect	14
TSSi	19
ttgsea	88
TTMap	62
TurboNorm	74
TVTB	70
tweeDEseq	153
twilight	117
twoddpcr	61
txcutr	51
txdbmaker	1225
tximeta	1119
tximport	3407
TxRegInfra	9
TypeInfo	61
UCell	1402
UCSC.utils	11494
Ularcirc	70
UMI4Cats	64
uncoverappLib	63
UNDO	72
unifiedWMWqPCR	49
UniProt.ws	424
Uniquorn	63
universalmotif	619
updateObject	47
UPDhmm	18
uSORT	64
VAExprs	50
VanillaICE	237
VarCon	49
variancePartition	950
VariantAnnotation	12303
VariantExperiment	51
VariantFiltering	98
VariantTools	178
vasp	3
VaSP	63
vbmp	93
VCFArray	66
VDJdive	55
Vega	16
VegaMC	62
velociraptor	136
veloviz	52
VennDetail	249
VERSO	51
vidger	117
viper	716
virtualArray	7
ViSEAGO	134
VisiumIO	22
vissE	101
Voyager	159
VplotR	60
vsclust	56
vsn	5254
vtpnet	86
vulcan	72
waddR	54
wateRmelon	798
wavClusteR	70
waveTiling	21
weaver	71
webbioc	74
weitrix	58
widgetInvoke	3
widgetTools	1306
wiggleplotr	179
wpm	62
wppi	45
Wrench	1677
XBSeq	13
XCIR	6
xcms	1886
xcore	50
XDE	83
Xeva	120
XINA	49
xmapbridge	65
xmapcore	3
XNAString	54
xps	20
XVector	48810
y2hStat	1
yamss	68
YAPSA	93
yaqcaffy	22
yarn	136
zellkonverter	1236
zenith	141
zFPKM	112
zinbwave	943
zitools	1
zlibbioc	52831
ZygosityPredictor	49