Package	Download_score
a4	125
a4Base	186
a4Classif	150
a4Core	199
a4Preproc	203
a4Reporting	152
ABAEnrichment	20
ABarray	118
abseqR	82
ABSSeq	145
acde	92
ACE	116
aCGH	251
ACME	123
ADaCGH2	109
ADAM	223
ADAMgui	118
adaptest	10
adductomicsR	80
ADImpute	92
adSplit	109
adverSCarial	56
AffiXcan	80
affxparser	1649
affy	8071
affycomp	133
AffyCompatible	48
affyContam	154
affycoretools	419
AffyExpress	36
affyILM	113
affyio	8166
affylmGUI	133
affyPara	37
affypdnn	34
affyPLM	1101
affyQCReport	41
AffyRNADegradation	94
AffyTiling	22
AGDEX	97
aggregateBioVar	90
Agi4x44PreProcess	14
agilp	117
AgiMicroRna	165
AHMassBank	70
AIMS	426
airpart	87
alabaster	66
alabaster.base	1871
alabaster.bumpy	106
alabaster.files	60
alabaster.mae	111
alabaster.matrix	1835
alabaster.ranges	1772
alabaster.sce	647
alabaster.schemas	1619
alabaster.se	1705
alabaster.spatial	107
alabaster.string	123
alabaster.vcf	114
ALDEx2	1204
alevinQC	105
AllelicImbalance	128
AlphaBeta	73
AlphaMissenseR	47
alpine	36
ALPS	9
AlpsNMR	87
alsace	24
altcdfenvs	153
AMARETTO	226
AMOUNTAIN	118
amplican	107
ampliQueso	20
AnalysisPageServer	14
anamiR	11
Anaquin	82
ANCOMBC	1233
AneuFinder	113
ANF	77
animalcules	227
annaffy	301
AnnBuilder	5
annmap	138
annotate	17716
AnnotationDbi	36216
AnnotationFilter	11148
AnnotationForge	2255
AnnotationFuncs	31
AnnotationHub	11752
AnnotationHubData	384
annotationTools	156
annotatr	498
anota	117
anota2seq	101
antiProfiles	91
AnVIL	581
AnVILAz	17
AnVILBase	29
AnVILBilling	68
AnVILGCP	16
AnVILPublish	78
AnVILWorkflow	61
APAlyzer	94
apComplex	104
apeglm	3621
APL	222
applera	1
appreci8R	114
aroma.light	2034
ArrayExpress	459
ArrayExpressHTS	32
arrayMagic	5
arrayMvout	96
arrayQCplot	1
arrayQuality	163
arrayQualityMetrics	491
ArrayTools	34
ArrayTV	27
ARRmNormalization	93
artMS	101
ASAFE	74
ASEB	88
ASGSCA	87
ASICS	113
asmn	5
ASpediaFI	14
ASpli	125
AssessORF	169
ASSET	135
ASSIGN	144
assorthead	349
ASURAT	81
ATACCoGAPS	61
ATACseqQC	395
ATACseqTFEA	80
atena	130
AtlasRDF	12
atSNP	102
attract	113
AUCell	2435
autonomics	71
Autotuner	9
AWFisher	81
awst	70
BaalChIP	89
BAC	28
bacon	138
BADER	94
BadRegionFinder	80
BAGS	98
ballgown	669
bambu	298
bamsignals	1076
BANDITS	135
bandle	73
Banksy	99
banocc	101
barcodetrackR	73
basecallQC	92
BaseSpaceR	94
Basic4Cseq	97
BASiCS	185
BASiCStan	103
BasicSTARRseq	79
basilisk	3916
basilisk.utils	3631
batchelor	3992
BatchQC	128
BayesKnockdown	76
BayesPeak	29
BayesSpace	262
bayNorm	105
baySeq	493
BBCAnalyzer	85
BCRANK	108
bcSeq	82
BDMMAcorrect	34
beachmat	16067
beachmat.hdf5	104
beadarray	777
beadarraySNP	63
BeadDataPackR	640
BeadExplorer	4
BEARscc	78
BEAT	92
BEclear	96
beer	75
benchdamic	97
BERT	39
betaHMM	38
betr	27
bettr	36
BG2	65
bgafun	29
BgeeCall	66
BgeeDB	160
BGmix	23
bgx	104
BHC	90
BicARE	161
BiFET	82
BiGGR	97
bigmelon	89
bigmemoryExtras	26
bigPint	25
bim	3
BindingSiteFinder	77
bioassayR	103
Biobase	48716
biobroom	239
biobtreeR	67
bioCancer	99
BioCartaImage	60
BiocBaseUtils	6602
BiocBook	69
BiocCaseStudies	32
BiocCheck	1707
biocDatasets	7
BiocDockerManager	12
BiocFHIR	66
BiocFileCache	26416
BiocGenerics	57368
biocGraph	280
BiocHail	48
BiocHubsShiny	98
BiocInstaller	318
BiocIO	20034
BiocNeighbors	10990
BiocOncoTK	84
BioCor	104
BiocParallel	41501
BiocPkgTools	155
biocroxytest	47
BiocSet	328
BiocSingular	12654
BiocSklearn	105
BiocStyle	5845
biocthis	268
BiocVersion	60278
biocViews	4358
BiocWorkflowTools	188
biodb	196
biodbChebi	104
biodbExpasy	65
biodbHmdb	79
biodbKegg	81
biodbLipidmaps	47
biodbMirbase	26
biodbNcbi	68
biodbNci	75
biodbUniprot	68
bioDist	281
BioGA	15
biomaRt	23401
BioMedR	3
biomformat	5570
BioMM	16
BioMVCClass	98
biomvRCNS	97
BioNAR	85
BioNERO	325
BioNet	297
BioNetStat	87
BioQC	142
BioSeqClass	31
biosigner	117
Biostrings	47835
biosvd	26
BioTIP	91
biotmle	84
biovizBase	5430
BiRewire	153
birta	27
birte	12
biscuiteer	93
BiSeq	172
BitSeq	39
blacksheepr	88
blima	87
BLMA	96
BloodGen3Module	170
bluster	5586
bnbc	232
bnem	81
BOBaFIT	78
borealis	73
BPRMeth	125
BRAIN	145
brainflowprobes	50
brainImageR	3
BrainSABER	11
BrainStars	26
branchpointer	105
breakpointR	83
brendaDb	74
BREW3R.r	36
BRGenomics	122
bridge	32
BridgeDbR	95
broadSeq	18
BrowserViz	188
BrowserVizDemo	5
BSgenome	16679
BSgenomeForge	153
bsseq	1525
BubbleTree	101
BufferedMatrix	127
BufferedMatrixMethods	94
bugsigdbr	231
BUMHMM	104
bumphunter	2878
BumpyMatrix	566
BUS	94
BUScorrect	73
BUSpaRse	219
BUSseq	74
CaDrA	57
CAEN	65
CAFE	100
CAGEfightR	270
cageminer	79
CAGEr	244
CALIB	32
calm	60
CAMERA	512
CAMTHC	7
CaMutQC	40
canceR	121
cancerclass	223
CancerInSilico	25
CancerMutationAnalysis	31
CancerSubtypes	90
CAnD	17
caOmicsV	12
cardelino	81
Cardinal	216
CardinalIO	180
CARNIVAL	169
casper	92
CATALYST	604
Category	1822
categoryCompare	104
CausalR	87
cbaf	88
CBEA	137
cBioPortalData	441
CBNplot	160
cbpManager	72
ccfindR	109
ccImpute	71
ccmap	106
CCPlotR	77
CCPROMISE	87
ccrepe	127
CDI	59
celaref	96
celda	778
CellaRepertorium	43
CellBarcode	87
cellbaseR	100
CellBench	147
cellGrowth	23
cellHTS	26
cellHTS2	239
CelliD	256
cellity	86
CellMapper	85
cellmigRation	65
CellMixS	98
CellNOptR	218
cellscape	67
CellScore	77
CellTrails	80
cellTree	23
cellxgenedp	108
CEMiTool	163
censcyt	76
Cepo	213
ceRNAnetsim	63
CeTF	103
CexoR	96
CFAssay	70
cfdnakit	70
cfDNAPro	93
cfTools	65
CGEN	88
CGHbase	455
CGHcall	421
cghMCR	106
CGHnormaliter	103
CGHregions	119
ChAMP	682
CHARGE	10
charm	37
ChemmineOB	327
ChemmineR	834
CHETAH	111
ChIC	19
Chicago	118
chihaya	109
chimera	33
chimeraviz	130
ChIPanalyser	88
ChIPComp	85
chipenrich	186
ChIPexoQual	94
ChIPpeakAnno	1086
ChIPQC	363
ChIPseeker	1872
chipseq	660
ChIPseqR	118
ChIPSeqSpike	13
ChIPsim	112
ChIPXpress	113
chopsticks	121
chroGPS	31
chromDraw	82
ChromHeatMap	153
ChromoViz	4
chromPlot	250
ChromSCape	81
chromstaR	109
chromswitch	24
chromVAR	1177
CHRONOS	84
cicero	236
CIMICE	70
CINdex	92
circRNAprofiler	96
CircSeqAlignTk	71
cisPath	78
CiteFuse	100
ClassifyR	391
cleanUpdTSeq	132
CleanUpRNAseq	16
cleaver	229
clevRvis	74
clippda	99
clipper	120
cliProfiler	66
cliqueMS	129
Clomial	79
Clonality	35
clonotypeR	29
clst	124
clstutils	94
CluMSID	83
ClustAll	45
clustComp	89
clusterExperiment	337
ClusterFoldSimilarity	39
ClusterJudge	81
clusterProfiler	19158
clusterSeq	85
ClusterSignificance	80
clusterStab	111
clustifyr	168
ClustIRR	68
CMA	154
cmapR	421
CNAnorm	96
CNEr	3536
cn.farms	98
cn.mops	281
CNORdt	96
CNORfeeder	105
CNORfuzzy	100
CNORode	118
CNPBayes	12
CNTools	167
CNVfilteR	80
CNVgears	33
cnvGSA	100
CNViz	75
CNVMetrics	72
CNVPanelizer	86
CNVRanger	138
CNVrd2	95
CNVtools	26
cobindR	28
CoCiteStats	90
COCOA	101
codelink	114
CODEX	134
coexnet	19
CoGAPS	382
cogena	106
cogeqc	86
Cogito	69
coGPS	87
COHCAP	54
cola	142
comapr	77
combi	107
coMET	96
coMethDMR	85
compartmap	37
COMPASS	108
compcodeR	108
compEpiTools	96
CompGO	22
ComplexHeatmap	15278
CompoundDb	279
ComPrAn	68
compSPOT	52
conclus	8
concordexR	86
condcomp	4
condiments	117
CONFESS	99
consensus	71
ConsensusClusterPlus	3100
consensusDE	89
consensusOV	139
consensusSeekeR	122
consICA	209
CONSTANd	69
contiBAIT	53
conumee	182
convert	168
copa	90
COPDSexualDimorphism	3
copynumber	133
CopyNumber450k	11
CopyNumberPlots	177
CopywriteR	36
coRdon	205
CoRegFlux	5
CoRegNet	44
CoreGx	388
Cormotif	98
CorMut	23
coRNAi	24
corral	93
CORREP	49
coseq	160
CoSIA	54
cosmiq	167
cosmo	8
cosmoGUI	8
cosmosR	97
COSNet	79
COTAN	104
CountClust	18
countsimQC	325
covEB	76
CoverageView	93
covRNA	82
cpvSNP	85
cqn	330
CRImage	115
CRISPRball	53
crisprBase	176
crisprBowtie	171
crisprBwa	71
crisprDesign	154
crisprScore	183
CRISPRseek	187
crisprseekplus	34
crisprShiny	39
CrispRVariants	164
crisprVerse	97
crisprViz	135
crlmm	353
CrossICC	4
crossmeta	194
CSAR	106
csaw	604
csdR	63
CSSP	25
CSSQ	71
ctc	298
CTdata	62
CTDquerier	80
CTexploreR	40
ctgGEM	8
cTRAP	91
ctsGE	83
CTSV	75
cummeRbund	253
CuratedAtlasQueryR	78
customCMPdb	85
customProDB	115
CVE	14
cyanoFilter	74
cycle	96
cydar	113
cypress	36
CytoDx	99
cytofast	9
cytofkit	25
CyTOFpower	66
cytofQC	79
CytoGLMM	115
cytoKernel	81
cytolib	2741
cytomapper	344
CytoMDS	36
cytoMEM	110
CytoML	459
CytoPipeline	112
CytoPipelineGUI	55
CytoTree	16
cytoviewer	114
dada2	2302
dagLogo	111
daMA	89
DAMEfinder	81
DaMiRseq	144
Damsel	27
DAPAR	162
dar	39
DART	95
DASC	2
DASiR	14
dasper	14
DAVIDQuery	14
DBChIP	32
dcanr	167
DCATS	81
dce	86
dcGSA	74
DChIPRep	16
ddCt	118
ddgraph	21
ddPCRclust	99
dearseq	257
debCAM	81
debrowser	194
DECIPHER	2904
deco	15
DEComplexDisease	17
decompTumor2Sig	154
DeconRNASeq	271
decontam	1727
decontX	188
deconvR	84
decoupleR	1142
DEDS	27
DeepBlueR	40
DeepPINCS	101
deepSNV	190
DeepTarget	17
DEFormats	275
DegCre	36
DegNorm	75
DEGraph	90
DEGreport	628
DEGseq	187
DelayedArray	41956
DelayedDataFrame	85
DelayedMatrixStats	16048
DelayedRandomArray	107
DelayedTensor	71
DELocal	90
deltaCaptureC	72
deltaGseg	82
DeMAND	67
DeMixT	116
demuxmix	267
demuxSNP	62
densvis	1974
DEP	538
DepecheR	91
DepInfeR	63
DeProViR	36
DEqMS	251
derfinder	587
derfinderHelper	585
derfinderPlot	169
DEScan2	91
DESeq	200
DESeq2	21898
DEsingle	264
DESpace	78
destiny	683
DEsubs	83
DEWSeq	83
DExMA	79
DEXSeq	1508
dexus	31
DFP	97
DIAlignR	69
DiffBind	1088
diffcoexp	227
diffcyt	477
DifferentialRegulation	75
diffGeneAnalysis	85
diffHic	137
DiffLogo	96
diffloop	33
diffuStats	91
diffUTR	73
diggit	79
Dino	75
dinoR	35
Director	61
dir.expiry	3652
DirichletMultinomial	4922
discordant	105
DiscoRhythm	89
distinct	318
dittoSeq	1460
divergence	65
dks	74
DMCFB	74
DMCHMM	76
DMRcaller	107
DMRcate	1038
DMRforPairs	34
DMRScan	71
dmrseq	231
DNABarcodeCompatibility	61
DNABarcodes	182
DNAcopy	5387
DNAfusion	68
DNaseR	6
DNAshapeR	103
domainsignatures	24
DominoEffect	80
dominoSignal	11
doppelgangR	235
DOQTL	15
Doscheda	87
DOSE	19117
doseR	74
doubletrouble	83
dpeak	23
drawProteins	216
dreamlet	85
DRIMSeq	321
DriverNet	78
DropletUtils	2598
drugTargetInteractions	76
DrugVsDisease	164
dSimer	10
DSS	877
dStruct	65
DTA	107
dualKS	31
Dune	65
DupChecker	10
dupRadar	134
dyebias	102
DynDoc	1342
easier	156
EasyCellType	79
easylift	63
EasyqpcR	28
easyreporting	73
easyRNASeq	224
EBarrays	247
EBcoexpress	108
EBImage	2742
EBSEA	74
EBSeq	411
EBSeqHMM	49
ecolitk	105
EDASeq	1835
edd	13
EDDA	26
edge	123
edgeR	24119
EDIRquery	57
eds	424
eegc	89
EGAD	91
EGSEA	242
eiR	90
eisa	35
eisaR	134
ELBOW	24
ELMER	197
EMDomics	98
EmpiricalBrownsMethod	153
ENCODExplorer	18
EnhancedVolcano	4691
enhancerHomologSearch	72
EnMCB	77
ENmix	256
EnrichedHeatmap	584
EnrichmentBrowser	639
enrichplot	18257
enrichTF	61
enrichViewNet	71
ensembldb	10189
ensemblVEP	167
ENVISIONQuery	26
epialleleR	77
EpiCompare	39
epidecodeR	67
EpiDISH	690
epigenomix	93
epigraHMM	80
epihet	15
EpiMix	69
epimutacions	77
epiNEM	171
epiregulon	40
epiregulon.extra	38
epistack	68
epistasisGA	63
EpiTxDb	100
epivizr	160
epivizrChart	85
epivizrData	153
epivizrServer	159
epivizrStandalone	84
erccdashboard	103
erma	125
ERSSA	80
esATAC	111
escape	445
escheR	136
esetVis	94
eudysbiome	74
evaluomeR	80
EventPointer	92
EWCE	251
ExCluster	63
ExiMiR	93
exomeCopy	289
exomePeak	34
exomePeak2	101
exonmap	9
ExperimentHub	7750
ExperimentHubData	299
ExperimentSubset	91
explorase	27
ExploreModelMatrix	184
ExpressionAtlas	262
ExpressionView	33
exprExternal	1
externalVector	8
extraChIPs	104
fabia	209
facopy	10
factDesign	97
factR	73
faers	50
FamAgg	97
famat	78
farms	55
fastLiquidAssociation	86
FastqCleaner	103
fastreeR	90
fastseg	787
fbat	6
FCBF	45
fCCAC	82
fCI	78
fcoex	68
fcScan	84
fdrame	90
FEAST	135
FeatSeekR	59
fedup	69
FELLA	150
FEM	29
fenr	63
ffpe	97
fgga	68
FGNet	140
fgsea	17672
FilterFFPE	79
findIPs	39
FindIT2	74
FindMyFriends	19
FISHalyseR	77
fishpond	265
FitHiC	91
flagme	87
FLAMES	97
flipflop	21
flowAI	577
flowBeads	92
flowBin	95
flowcatchR	96
flowCHIC	92
flowCL	28
flowClean	217
flowClust	820
flowCore	2886
flowCut	129
flowCyBar	79
flowDensity	291
flowFit	24
flowFlowJo	16
flowFP	197
flowGate	94
flowGraph	66
flowMap	50
flowMatch	98
flowMeans	185
flowMerge	167
flowPeaks	202
flowPhyto	11
flowPloidy	87
flowPlots	81
flowQ	24
flowQB	26
FlowRepositoryR	17
FlowSOM	1108
flowSpecs	99
flowSpy	6
flowStats	524
flowTime	88
flowTrans	120
flowType	26
flowUtils	55
flowViz	1048
flowVS	126
flowWorkspace	1247
fmcsR	278
fmrs	139
fobitools	77
focalCall	14
FoldGO	35
FourCSeq	19
FRASER	135
frenchFISH	57
FRGEpistasis	78
frma	175
frmaTools	108
FScanR	18
FunChIP	56
FunciSNP	27
funOmics	17
funtooNorm	89
FuseSOM	71
GA4GHclient	133
GA4GHshiny	89
gaga	138
gage	864
gaggle	57
gaia	34
GAPGOM	14
GAprediction	75
garfield	74
GARS	82
GateFinder	84
gatom	65
gaucho	18
GBScleanR	91
gcapc	79
gcatest	97
gCMAP	29
gCMAPWeb	23
gCrisprTools	85
gcrma	1307
GCSConnection	7
GCSFilesystem	7
GCSscore	19
GDCRNATools	304
gDNAx	78
gDR	58
gDRcore	102
gDRimport	106
gDRstyle	93
gDRutils	123
GDSArray	247
gdsfmt	2134
GeDi	48
geecc	21
GEM	77
gemini	66
gemma.R	87
genArise	85
genbankr	81
gene2pathway	11
GeneAccord	16
GeneAnswers	41
geneAttribution	85
GeneBreak	89
geneClassifiers	73
GENE.E	18
GeneExpressionSignature	114
genefilter	12346
genefu	430
GeneGA	76
GeneGeneInteR	78
GeneGroupAnalysis	7
GeneMeta	137
GeneNetworkBuilder	106
GeneOverlap	525
geneplast	124
geneplotter	5718
GeneR	11
geneRecommender	88
GeneRegionScan	104
GeneRfold	5
geneRxCluster	93
GeneSelectMMD	136
GeneSelector	28
GENESIS	375
GeneSpring	7
GeneStructureTools	104
geNetClassifier	176
GeneticsBase	7
GeneticsDesign	28
GeneticsPed	119
GeneTonic	375
GeneTraffic	7
GeneTS	4
geneXtendeR	132
GENIE3	1241
genoCN	81
GenoGAM	20
genomation	689
GenomAutomorphism	57
GenomeBase	1
GenomeGraphs	39
GenomeInfoDb	56726
genomeIntervals	211
genomes	102
GenomicAlignments	24250
GenomicDataCommons	1164
GenomicDistributions	117
GenomicFeatures	19802
GenomicFiles	1370
genomicInstability	78
GenomicInteractionNodes	66
GenomicInteractions	438
GenomicOZone	95
GenomicPlot	90
GenomicRanges	44341
GenomicScores	749
GenomicSuperSignature	84
GenomicTuples	79
Genominator	35
genoset	37
genotypeeval	24
GenoView	3
genphen	16
GenProSeq	60
GenRank	12
GenVisR	293
GeoDiff	90
GEOexplorer	78
GEOfastq	97
GEOmetadb	277
GeomxTools	426
GEOquery	9727
GEOsearch	5
GEOsubmission	96
GeoTcgaData	174
gep2pep	77
gespeR	102
getDEE2	68
geva	66
GEWIST	74
gff3Plotter	2
gg4way	61
GGBase	39
ggbio	2144
ggcyto	888
ggkegg	409
ggmanh	252
ggmsa	555
GGPA	64
ggsc	86
ggseqalign	17
ggspavis	197
GGtools	41
ggtree	21368
ggtreeDendro	74
ggtreeExtra	1073
ggtreeSpace	37
GIGSEA	68
ginmappeR	40
gINTomics	20
girafe	125
GISPA	44
GLAD	246
GladiaTOX	68
Glimma	1162
glmGamPoi	4724
glmSparseNet	245
GlobalAncova	1051
globalSeq	78
globaltest	1903
GloScope	64
gmapR	202
GmicR	83
gmoviz	76
GMRP	79
GNET2	69
GNOSIS	71
goCluster	1
GOexpress	108
GOfuncR	378
GOFunction	29
GoogleGenomics	10
GOpro	178
goProfiles	159
GOSemSim	18259
goseq	1396
GOSim	107
goSorensen	79
goSTAG	85
GOstats	1658
GOsummaries	52
GOTHiC	105
goTools	97
GPA	70
gpart	22
gpls	285
gprege	22
gpuMagic	70
gQTLBase	20
gQTLstats	22
GrafGen	36
gramm4R	6
GRaNIE	148
granulator	131
graper	69
graph	18794
GraphAlignment	81
GraphAT	103
graphite	3128
GraphPAC	130
GRENITS	81
GreyListChIP	1004
GRmetrics	108
groHMM	99
GRridge	24
GSALightning	70
GSAR	125
GSCA	86
gscreend	68
GSEABase	8991
GSEABenchmarkeR	108
GSEAlm	112
GSEAmining	83
gsean	84
GSgalgoR	71
GSReg	90
GSRI	97
GSVA	6787
gtrellis	153
GUIDEseq	106
Guitar	154
Gviz	3693
GWAS.BAYES	76
gwascat	703
GWASTools	646
gwasurvivr	111
GWENA	287
gypsum	1468
h5vc	119
hapFabia	89
Harman	192
HarmonizR	75
Harshlight	107
hca	77
HCABrowser	7
HCAExplorer	5
HCAMatrixBrowser	2
HCsnip	21
HDF5Array	14577
HDTD	66
hdxmsqc	24
heatmaps	288
Heatplus	503
HelloRanges	155
HELP	90
HEM	88
hermes	208
HERON	56
Herper	151
hexbin	36
HGC	80
hiAnnotator	131
HIBAG	140
HicAggR	36
HiCBricks	161
HiCcompare	291
HiCDCPlus	106
HiCDOC	120
HiCExperiment	171
HiContacts	124
HiCool	81
hicrep	11
hicVennDiagram	63
hierGWAS	83
hierinf	61
HilbertCurve	109
HilbertVis	209
HilbertVisGUI	63
HiLDA	95
hipathia	234
HIPPO	69
hiReadsProcessor	91
HIREewas	72
HiTC	164
hmdbQuery	95
HMMcopy	333
HoloFoodR	16
hoodscanR	77
hopach	358
HPAanalyze	147
hpar	295
HPAStainR	12
HPiP	71
HTqPCR	148
HTSanalyzeR	35
HTSeqGenie	71
htSeqTools	28
HTSFilter	238
HubPub	129
HumanTranscriptomeCompendium	59
hummingbird	63
HybridExpress	53
HybridMTest	155
hypeR	119
hyperdraw	148
hypergraph	200
iASeq	76
iasva	86
iBBiG	145
ibh	84
iBMQ	70
iCARE	166
Icens	490
icetea	78
iCheck	79
iChip	91
iClusterPlus	412
iCNV	85
iCOBRA	265
ideal	121
IdeoViz	95
idiogram	99
IdMappingAnalysis	24
IdMappingRetrieval	28
idpr	86
idr2d	74
IFAA	64
iFlow	5
iGC	80
IgGeneUsage	69
igvR	133
igvShiny	47
IHW	727
illuminaio	3081
ILoReg	66
imageHTS	42
IMAS	82
imcRtools	236
Imetagene	17
IMMAN	74
ImmuneSpaceR	57
immunoClust	92
immunogenViewer	16
immunotation	72
IMPCdata	66
ImpulseDE	9
ImpulseDE2	18
impute	10583
INDEED	61
iNETgrate	63
infercnv	1126
infinityFlow	97
Informeasure	61
InPAS	92
INPower	89
inSilicoDb	20
inSilicoMerging	21
INSPEcT	96
INTACT	62
InTAD	80
intansv	107
interacCircos	75
InteractionSet	2032
InteractiveComplexHeatmap	429
interactiveDisplay	127
interactiveDisplayBase	7932
InterCellar	91
IntEREst	96
InterMineR	102
IntOMICS	24
IntramiRExploreR	75
inveRsion	23
IONiseR	98
iontree	20
iPAC	156
iPath	60
ipdDb	212
IPO	207
IPPD	23
IRanges	52854
IRISFGM	73
IrisSpatialFeatures	4
ISAnalytics	74
iSEE	515
iSEEde	82
iSEEfier	40
iSEEhex	166
iSEEhub	215
iSEEindex	68
iSEEpathways	66
iSEEtree	24
iSEEu	138
iSeq	75
ISLET	70
iSNetwork	2
isobar	113
IsoBayes	59
IsoCorrectoR	132
IsoCorrectoRGUI	75
IsoformSwitchAnalyzeR	283
IsoGeneGUI	33
ISoLDE	62
isomiRs	193
iSPlot	3
ITALICS	95
iterativeBMA	93
iterativeBMAsurv	78
iterClust	45
iteremoval	14
IVAS	105
ivygapSE	77
IWTomics	93
jmosaics	12
joda	28
JunctionSeq	19
karyoploteR	863
katdetectr	80
KBoost	60
KCsmart	99
kebabs	166
KEGGgraph	5493
KEGGlincs	95
keggorth	4
keggorthology	260
KEGGprofile	36
KEGGREST	36314
KEGGSOAP	16
kimod	11
KinSwingR	75
kissDE	85
kmcut	13
KnowSeq	80
knowYourCG	34
LACE	215
lapmix	85
LBE	236
ldblock	120
LEA	546
LedPred	66
lefser	567
lemur	88
les	126
levi	61
lfa	306
limma	33330
limmaGUI	110
limpca	37
LINC	12
LineagePulse	38
lineagespot	67
LinkHD	80
Linnorm	247
LinTInd	68
lionessR	75
lipidr	196
LiquidAssociation	117
lisaClust	150
lmdme	86
LMGene	31
LOBSTAHS	122
loci2path	83
logicFS	118
logitT	40
Logolas	13
lol	17
LOLA	307
LoomExperiment	635
LowMACA	23
LPE	120
LPEadj	57
lpNet	99
lpsymphony	1015
LRBaseDbi	142
LRcell	67
lumi	1285
lute	38
LVSmiRNA	27
LymphoSeq	93
M3C	691
M3D	14
M3Drop	701
m6Aboost	64
maanova	45
Maaslin2	1045
Macarron	116
macat	62
maCorrPlot	82
MACPET	16
MACSQuantifyR	58
MACSr	123
maDB	15
made4	298
MADSEQ	83
maftools	2588
MAGAR	181
MAGeCKFlute	380
magpie	66
magrene	66
MAI	78
maigesPack	59
MAIT	164
makecdfenv	214
makePlatformDesign	6
MANOR	97
manta	28
MantelCorr	75
MAPFX	40
mAPKL	24
maPredictDSC	87
mapscape	67
mariner	74
marr	71
marray	1983
martini	80
maser	148
maSigPro	290
maskBAD	94
MassArray	74
massiR	85
MassSpecWavelet	1829
MAST	2166
mastR	213
matchBox	75
matchprobes	7
MatrixGenerics	39736
MatrixQCvis	225
MatrixRider	84
matter	248
MaxContrastProjection	14
MBAmethyl	61
MBASED	79
MBCB	85
MBECS	90
mbkmeans	417
mbOmic	7
mBPCR	93
MBQN	77
mbQTL	65
MBttest	78
mcaGUI	29
MCbiclust	81
MCRestimate	30
mCSEA	128
mdgsa	18
mdp	74
mdqc	133
MDTS	71
MEAL	107
MeasurementError.cor	81
MEAT	71
MEB	70
MEDIPS	143
MEDME	87
megadepth	147
MEIGOR	86
Melissa	73
memes	221
MergeMaid	35
Mergeomics	89
MeSHDbi	279
meshes	174
meshr	162
MeSHSim	4
MesKit	97
messina	83
metaArray	34
Metab	111
metabCombiner	98
metabinR	58
MetaboAnnotation	299
MetaboCoreUtils	1898
metabolomicsWorkbenchR	101
metabomxtr	80
MetaboSignal	143
metaCCA	149
MetaCyto	100
metagene	35
metagene2	92
metagenomeFeatures	16
metagenomeSeq	1707
metahdep	88
metaMS	196
MetaNeighbor	114
MetaPhOR	82
metapod	4903
metapone	79
metaSeq	96
metaseqR	28
metaseqR2	93
metavizr	21
MetaVolcanoR	53
metaX	2
MetCirc	102
MethCP	12
methimpute	82
methInheritSim	92
methodical	33
MethPed	81
MethReg	81
methrix	108
MethTargetedNGS	75
methVisual	27
methyAnalysis	34
MethylAid	121
methylCC	90
methylclock	167
methylGSA	139
methyLImp2	40
methylInheritance	90
methylKit	662
MethylMix	117
methylMnM	104
methylPipe	154
methylscaper	100
MethylSeekR	165
methylSig	97
methylumi	1599
methyvim	14
MetID	80
MetNet	78
mfa	116
Mfuzz	1342
MGFM	89
MGFR	92
MGnifyR	49
mgsa	134
mia	1556
miaSim	97
miaViz	271
MiChip	84
microbiome	1737
microbiomeDASim	79
microbiomeExplorer	99
microbiomeMarker	413
MicrobiomeProfiler	140
MicrobiotaProcess	522
microRNA	184
microSTASIS	66
MICSQTL	59
midasHLA	71
MIGSA	22
miloR	325
mimager	90
MIMOSA	34
mina	61
MineICA	103
minet	865
minfi	2509
MinimumDistance	122
MiPP	95
miQC	125
MIRA	138
MiRaGE	96
miRBaseConverter	118
miRcomp	82
mirIntegrator	93
MIRit	51
miRLAB	96
miRmine	48
miRNAmeConverter	84
miRNApath	89
miRNAtap	176
miRSM	69
miRsponge	9
miRspongeR	62
Mirsynergy	20
mirTarRnaSeq	84
missMethyl	1059
missRows	77
mistyR	109
mitch	77
mitoClone2	94
mitoODE	21
mixOmics	2661
MLInterfaces	499
mlm4omics	3
MLP	180
MLSeq	185
MMAPPR2	24
MMDiff	17
MMDiff2	79
mmgmos	2
mmnet	18
MmPalateMiRNA	30
MMUPHin	156
mnem	172
moanin	228
mobileRNA	39
MobilityTransformR	75
MODA	82
ModCon	59
Modstrings	223
MOFA	8
MOFA2	519
MOGAMUN	69
mogsa	235
MoleculeExperiment	89
MOMA	76
monaLisa	171
monocle	3263
Moonlight2R	69
MoonlightR	104
MoPS	13
mosaics	190
mosbi	66
mosdef	58
MOSim	80
Motif2Site	68
motifbreakR	235
motifcounter	80
MotifDb	670
motifmatchr	1377
motifRG	28
motifStack	745
motifTestR	51
MotIV	43
MouseFM	212
MPAC	16
MPFE	66
mpra	87
MPRAnalyze	87
MQmetrics	31
mQTL.NMR	14
msa	1688
MSA2dist	142
MsBackendMassbank	96
MsBackendMgf	424
MsBackendMsp	335
MsBackendRawFileReader	82
MsBackendSql	93
MsCoreUtils	3694
MsDataHub	89
MSEADbi	5
MsExperiment	1505
MsFeatures	1589
msgbsR	88
MSGFgui	20
MSGFplus	22
msImpute	199
mslp	56
msmsEDA	299
msmsTests	287
MSnbase	3250
MSnID	345
MSPrep	215
msPurity	101
msqrob2	168
MsQuality	78
MSstats	527
MSstatsBig	58
MSstatsConvert	485
MSstatsLiP	99
MSstatsLOBD	71
MSstatsPTM	226
MSstatsQC	104
MSstatsQCgui	68
MSstatsSampleSize	20
MSstatsShiny	122
MSstatsTMT	306
MSstatsTMTPTM	4
MTseeker	4
MuData	81
Mulcom	102
MultiAssayExperiment	6215
MultiBaC	96
multiClust	111
multicrispr	80
MultiDataSet	1321
multiGSEA	159
multiHiCcompare	186
MultiMed	79
multiMiR	256
MultimodalExperiment	56
multiOmicsViz	45
MultiRNAflow	79
multiscan	88
multiSight	64
multistateQTL	33
multiWGCNA	92
multtest	12521
mumosa	90
MungeSumstats	1074
muscat	540
muscle	363
musicatk	107
MutationalPatterns	333
MVCClass	138
mvGST	13
MWASTools	185
mygene	357
myvariant	104
mzID	3120
mzR	3363
NADfinder	86
NanoMethViz	105
NanoStringDiff	104
NanoStringNCTools	422
NanoStringQCPro	35
nanotatoR	95
NanoTube	97
NarrowPeaks	26
NBAMSeq	198
NBSplice	17
ncdfFlow	1130
ncGTW	147
NCIgraph	133
ncRNAtools	71
ndexr	88
neaGUI	12
nearBynding	71
Nebulosa	1178
NeighborNet	26
nem	40
nempi	79
NetActivity	65
netbenchmark	14
netbiov	42
netboost	66
netboxr	12
netDx	62
nethet	92
netOmics	32
NetPathMiner	77
netprioR	68
netReg	15
netresponse	105
NetSAM	118
netSmooth	90
networkBMA	31
netZooR	80
NeuCA	52
NewWave	125
NGScopy	12
ngsReports	95
nipalsMCIA	64
nnNorm	96
nnSVG	141
NOISeq	643
nondetects	62
NoRCE	74
normalize450K	74
NormalyzerDE	189
NormqPCR	183
normr	153
NPARC	88
npGSEA	90
NTW	81
nucleoSim	81
nucleR	116
nuCpos	71
nudge	21
nullranges	205
NuPoP	97
NxtIRFcore	10
occugene	82
OCplus	116
octad	78
ODER	7
odseq	85
OGRE	75
OGSA	12
oligo	1721
oligoClasses	1738
OLIN	131
OLINgui	95
omada	63
OmaDB	294
omicade4	196
OmicCircos	204
omicplotR	85
omicRexposome	88
OmicsLonDA	19
OmicsMarkeR	15
OMICsPCA	89
omicsPrint	87
omicsViewer	68
Omixer	73
OmnipathR	617
ompBAM	130
Onassis	17
oncomix	75
oncoscanR	73
OncoScore	88
OncoSimulR	85
oneChannelGUI	36
oneSENSE	27
onlineFDR	61
ontoCAT	21
ontoProc	297
ontoTools	13
openCyto	672
openPrimeR	178
openPrimeRui	71
OpenStats	63
OperaMate	6
oposSOM	115
oppar	88
oppti	64
optimalFlow	81
OPWeight	76
OrderedList	103
ORFhunteR	72
ORFik	207
OrganismDbi	3193
Organism.dplyr	440
orthogene	350
orthos	62
OSAT	107
Oscope	110
OTUbase	94
OutlierD	31
OUTRIDER	228
OutSplice	64
OVESEG	86
PAA	93
packFinder	79
padma	74
PADOG	342
pageRank	72
PAIRADISE	110
paircompviz	86
pairedGSEA	65
pairkat	95
pairseqsim	2
pamr	14
pandaR	145
panelcn.mops	105
PAnnBuilder	28
PanomiR	85
panp	116
PANR	90
PanViz	55
PanVizGenerator	18
PAPi	27
pareg	68
parglms	74
parody	134
partCNV	55
PAST	71
Path2PPI	82
pathifier	119
pathlinkR	51
PathNet	93
PathoStat	167
pathprint	12
pathRender	100
pathVar	22
pathview	4582
pathwayPCA	94
PathwaySplice	11
PatientGeneSets	4
paxtoolsr	123
Pbase	17
pbcmc	8
pcaExplorer	489
pcaGoPromoter	23
pcaMethods	5277
PCAN	86
PCAtools	1258
pcot2	39
PCpheno	31
pcxn	60
PDATK	188
pdInfoBuilder	145
pdmclass	28
PeacoQC	259
peakPantheR	79
PECA	90
peco	69
Pedixplorer	36
pengls	58
PepSetTest	15
PepsNMR	157
pepStat	78
pepXMLTab	83
PERFect	33
periodicDNA	69
perturbatr	11
pfamAnalyzeR	269
PFP	10
PGA	17
pgca	65
PGSEA	70
pgUtils	8
pgxRpi	43
phantasus	252
phantasusLite	72
PharmacoGx	302
phemd	33
phenoDist	20
PhenoGeneRanker	56
phenomis	77
phenopath	111
phenoTest	166
PhenStat	86
philr	190
PhIPData	119
phosphonormalizer	67
PhosR	134
PhyloProfile	92
phyloseq	5534
Pi	66
piano	491
pickgene	79
PICS	148
Pigengene	143
PING	109
pint	22
pipeComp	76
pipeFrame	178
PIPETS	39
Pirat	14
PIUMA	37
pkgDepTools	42
planet	212
planttfhunter	85
plasmut	52
plateCore	28
plethy	34
plgem	146
plier	142
PloGO2	57
plotgardener	336
plotGrouper	68
PLPE	89
plrs	23
PLSDAbatch	54
plw	32
plyinteractions	72
plyranges	1269
pmm	77
pmp	132
PoDCall	64
podkat	87
pogos	121
polyester	133
Polyfit	20
PolySTest	13
POMA	182
POST	13
PoTRA	12
PowerExplorer	11
powerTCR	345
POWSC	81
ppcseq	72
PPInfer	231
ppiStats	40
pqsfinder	124
prada	42
pram	78
prebs	99
preciseTAD	83
PrecisionTrialDrawer	13
PREDA	115
predictionet	29
preprocessCore	14168
primirTSS	80
PrInCE	79
Prize	14
proActiv	88
proBAMr	78
proBatch	29
PROcess	121
procoil	90
ProCoNA	20
proDA	281
proFIA	23
profileplyr	243
profileScoreDist	75
progeny	471
projectR	127
pRoloc	287
pRolocGUI	115
PROMISE	134
PROPER	114
PROPS	78
Prostar	103
prot2D	18
proteasy	26
proteinProfiles	74
ProteoDisco	72
ProteomicsAnnotationHubData	16
ProteoMM	97
proteoQC	17
protGear	73
ProtGenerics	11882
PSEA	47
psichomics	97
PSICQUIC	34
PSMatch	1278
psygenet2r	108
ptairMS	67
PubScore	8
pulsedSilac	9
puma	136
PureCN	184
pvac	91
pvca	276
Pviz	102
pwalign	2798
PWMEnrich	227
pwOmics	206
pwrEWAS	21
qckitfastq	87
qcmetrics	130
QDNAseq	396
QFeatures	2346
qmtools	72
qpcrNorm	102
qpgraph	210
qPLEXanalyzer	91
qrqc	37
qsea	91
qsmooth	202
QSutils	124
qsvaR	223
QTLExperiment	59
Qtlizer	71
QUALIFIER	29
quantiseqr	495
quantro	366
quantsmooth	664
QuartPAC	85
QuasR	374
QuaternaryProd	89
QUBIC	162
qusage	417
qvalue	17941
R3CPET	81
r3Cseq	116
R453Plus1Toolbox	109
R4RNA	668
RadioGx	84
raer	57
RaggedExperiment	905
RAIDS	62
rain	114
rama	28
RamiGO	18
ramr	67
ramwas	151
RandomWalkRestartMH	92
randPack	85
randRotation	63
RankProd	316
RAREsim	59
RareVariantVis	89
Rariant	30
Rarr	138
rawDiag	40
rawrr	228
RbcBook1	137
Rbec	77
RBGL	9461
RBioFormats	160
RBioinf	100
rBiopaxParser	189
rBLAST	82
RBM	80
Rbowtie	525
Rbowtie2	318
rbsurv	105
Rbwa	116
Rcade	36
RCAS	169
RCASPAR	73
rcellminer	97
rCGH	138
Rchemcpp	21
RchyOptimyx	26
RcisTarget	932
RCM	88
Rcollectl	39
Rcpi	145
RCSL	63
Rcwl	123
RcwlPipelines	123
RCX	106
RCy3	958
RCyjs	98
RCytoscape	20
RDAVIDWebService	49
Rdbi	11
RdbiPgSQL	8
rDGIdb	93
Rdisop	459
RDRToolbox	158
ReactomeContentService4R	129
ReactomeGraph4R	59
ReactomeGSA	242
ReactomePA	2580
readat	12
ReadqPCR	225
reb	29
REBET	71
rebook	143
receptLoss	63
reconsi	72
recount	417
recount3	311
recountmethylation	94
recoup	84
RedeR	354
RedisParam	62
REDseq	121
RefNet	21
RefPlus	58
RegEnrich	124
regionalpcs	74
RegionalST	66
regioneR	2006
regioneReloaded	73
regionReport	157
regsplice	76
regutools	94
REMP	92
Repitools	313
ReportingTools	678
reposTools	1
RepViz	124
ReQON	56
ResidualMatrix	3711
RESOLVE	70
Resourcerer	12
restfulSE	181
retrofit	58
ReUseData	70
rexposome	127
rfaRm	67
Rfastp	157
rflowcyt	11
rfPred	85
rGADEM	325
RGalaxy	29
rGenomeTracks	68
Rgin	12
RGMQL	67
RgnTX	65
rgoslin	106
RGraph2js	81
Rgraphviz	9683
rGREAT	683
RGSEA	93
rgsepd	79
rhdf5	20252
rhdf5client	174
rhdf5filters	19631
Rhdf5lib	23944
Rhisat2	244
Rhtslib	25057
rHVDM	28
RiboCrypt	72
RiboDiPA	70
RiboProfiling	115
ribor	73
riboSeqR	89
ribosomeProfilingQC	102
rifi	67
rifiComparative	62
RImmPort	64
Ringo	270
Rintact	4
RIPAT	27
RIPSeeker	36
Risa	193
RITAN	96
RIVER	79
RJMCMCNucleosomes	85
RLassoCox	73
RLMM	83
RLSeq	33
RMAGEML	9
Rmagpie	101
RMAPPER	9
RMassBank	131
rMAT	27
rmelting	79
RmiR	29
Rmmquant	80
rmspc	79
RNAAgeCalc	90
RNAdecay	57
rnaEditr	80
RNAinteract	97
RNAither	38
RNAmodR	130
RNAmodR.AlkAnilineSeq	82
RNAmodR.ML	77
RNAmodR.RiboMethSeq	84
RNAprobR	15
RNAsense	65
rnaseqcomp	89
RNAseqCovarImpute	55
rnaSeqMap	30
RNASeqPower	176
RNASeqR	13
RnaSeqSampleSize	118
RnBeads	308
Rnits	81
roar	92
roastgsa	57
ROC	1138
ROCpAI	61
RolDE	72
Roleswitch	27
Rolexa	17
rols	503
ROntoTools	231
ropls	1277
ROSeq	75
ROTS	234
RPA	137
rprimer	89
RProtoBufLib	2728
RpsiXML	40
rpx	316
Rqc	289
rqt	65
rqubic	115
rRDP	93
Rredland	5
RRHO	110
rrvgo	589
Rsamtools	23987
rsbml	180
rScudo	74
rsemmed	61
RSeqAn	117
rSFFreader	20
RSNPper	8
Rsubread	2274
RSVSim	94
rSWeeP	72
rTANDEM	27
RTCA	92
RTCGA	558
RTCGAToolbox	549
RTN	207
RTNduals	110
RTNsurvival	86
RTools4TB	5
RTopper	92
Rtpca	83
rtracklayer	21161
Rtreemix	97
rTRM	202
rTRMui	89
runibic	94
Ruuid	11
RUVcorr	82
RUVnormalize	94
RUVSeq	944
Rvisdiff	60
RVS	75
RWebServices	11
rWikiPathways	407
S4Arrays	38922
S4Vectors	56271
safe	696
SAGElyzer	5
sagenhaft	87
SAGx	40
SAIGEgds	111
samExploreR	13
sampleClassifier	88
SamSPECTRAL	180
sangeranalyseR	200
sangerseqR	925
SANTA	74
sapFinder	25
saps	4
SARC	59
sarks	68
saseR	45
satuRn	294
savR	28
SBGNview	225
sbgr	2
SBMLR	97
SC3	383
Scale4C	87
ScaledMatrix	12456
scAlign	20
scanMiR	107
scanMiRApp	69
scAnnotatR	230
SCAN.UPC	170
SCANVIS	83
SCArray	104
SCArray.sat	70
SCATE	69
scater	7375
scatterHatch	64
scBFA	81
SCBN	103
scBubbletree	73
scCB2	79
scClassifR	4
scClassify	135
sccomp	120
scDataviz	100
scDblFinder	1557
scDD	155
scDDboost	68
scde	392
scDesign3	78
scDotPlot	17
scds	538
SCFA	66
scFeatureFilter	73
scFeatures	80
scfind	11
scGPS	104
schex	243
scHOT	81
scider	65
scifer	71
ScISI	40
scMAGeCK	8
scmap	246
scMerge	598
scMET	65
scmeth	91
scMitoMut	36
scMultiSim	36
SCnorm	131
scone	133
Sconify	78
SCOPE	85
scoreInvHap	84
scp	225
scPCA	106
scPipe	158
scran	4884
scReClassify	79
scRecover	75
screenCounter	60
ScreenR	61
scRepertoire	498
scRNAseqApp	80
scruff	91
scry	256
scShapes	62
scsR	24
scTensor	145
scTGIF	254
scTHI	64
scTreeViz	70
scuttle	9521
scviR	64
SDAMS	81
seahtrue	13
sechm	173
segmenter	85
segmentSeq	109
selectKSigs	69
SELEX	90
SemDist	77
semisup	74
SemSim	3
SEPA	10
SEPIRA	27
seq2pathway	225
seqArchR	95
seqArchRplus	68
SeqArray	967
seqbias	82
seqCAT	89
seqCNA	50
seqcombo	77
SeqGate	72
SeqGSEA	253
seq.hotSPOT	55
seqLogo	3915
seqPattern	790
seqplots	23
seqsetvis	102
SeqSQC	197
seqTools	140
SeqVarTools	463
sesame	904
SEtools	242
sevenbridges	92
sevenC	73
SGCP	203
SGSeq	349
SharedObject	160
shinyepico	87
shiny.gosling	47
shinyMethyl	137
shinyTANDEM	21
ShortRead	6337
SIAMCAT	147
SICtools	71
sigaR	25
SigCheck	83
sigFeature	255
SigFuge	90
siggenes	3460
sights	84
signatureSearch	250
signeR	98
signet	10
signifinder	67
sigPathway	49
SigsPack	71
sigsquared	80
SIM	96
SIMAT	83
SimBindProfiles	61
SimBu	167
SIMD	72
SimFFPE	67
similaRpeak	86
SIMLR	259
simona	92
simPIC	37
simpleaffy	106
simpleSeg	84
simplifyEnrichment	891
simulatorAPMS	6
simulatorZ	18
sincell	83
single	48
SingleCellAlleleExperiment	52
SingleCellExperiment	15637
SingleCellSignalR	267
singleCellTK	344
SingleMoleculeFootprinting	78
SingleR	4243
singscore	1534
SiPSiC	67
SISPA	25
sitadela	69
sitePath	76
sizepower	94
SJava	9
sketchR	52
skewr	72
slalom	172
SLGI	39
slingshot	1497
slinky	14
SLqPCR	95
SMAD	68
SMAP	56
smartid	49
SMITE	82
smoothclust	43
SNAGEE	86
snapCGH	112
snapcount	79
snifter	151
snm	188
SNPchip	37
SNPediaR	70
SNPhood	85
snpMatrix	13
SNPRelate	1675
snpStats	2244
soGGi	370
sojourner	16
SomatiCA	15
SomaticSignatures	201
SOMNiBUS	73
SpaceMarkers	35
SpacePAC	128
spade	16
Spaniel	100
sparrow	288
SparseArray	38419
sparseDOSSA	34
sparseMatrixStats	15704
sparsenetgls	67
SparseSignatures	81
spaSim	78
SpatialCPie	94
spatialDE	123
SpatialDecon	218
SpatialExperiment	3229
SpatialFeatureExperiment	168
spatialHeatmap	269
SpatialOmicsOverlay	85
spatzie	65
speckle	209
specL	84
SpeCond	104
Spectra	2014
SpectralTAD	101
SPEM	112
SPIA	656
SPIAT	137
spicyR	204
SpidermiR	72
spikeLI	76
spiky	62
spillR	43
spkTools	87
splatter	512
splicegear	28
spliceR	22
spliceSites	23
SpliceWiz	131
SplicingFactory	63
SplicingGraphs	121
splineTCDiffExpr	0
splineTimeR	95
SPLINTER	84
splots	236
SPONGE	67
spoon	39
SpotClean	109
SPOTlight	268
spotSegmentation	24
SpotSweeper	36
spqn	67
SPsimSeq	233
SQLDataFrame	70
SQUADD	49
squallms	14
sRACIPE	88
SRAdb	487
sRAP	29
SRGnet	13
srnadiff	84
sscore	45
sscu	74
sSeq	204
ssize	125
sSNAPPY	209
SSPA	88
ssPATHS	67
ssrch	100
ssviz	87
stageR	196
stam	4
STAN	24
standR	147
staRank	83
StarBioTrek	51
Starr	31
STATegRa	89
Statial	84
statTarget	120
STdeconvolve	157
stepNorm	91
stepwiseCM	21
stJoincount	79
strandCheckR	79
Streamer	93
STRINGdb	1263
STROMA4	32
struct	170
Structstrings	178
structToolbox	128
StructuralVariantAnnotation	247
SubCellBarCode	80
subSeq	94
SUITOR	59
SummarizedBenchmark	47
SummarizedExperiment	39245
Summix	66
supersigs	154
supraHex	513
surfaltr	67
SurfR	35
survClust	18
survcomp	1273
survtype	74
Sushi	68
sva	7490
svaNUMT	77
SVAPLSseq	11
svaRetro	79
SVM2CRM	12
SVMDO	129
SWATH2stats	83
SwathXtend	87
swfdr	90
SwimR	16
switchBox	140
switchde	80
synapsis	59
synapter	161
synergyfinder	218
SynExtend	75
synlet	75
SynMut	69
syntenet	143
systemPipeR	1206
systemPipeShiny	83
systemPipeTools	78
tadar	70
TADCompare	103
tanggle	84
TAPseq	82
target	76
TargetDecoy	78
TargetScore	96
TargetSearch	99
TarSeqQC	22
TBSignatureProfiler	89
TCC	240
TCGAbiolinks	4095
TCGAbiolinksGUI	33
TCGAutils	862
TCseq	227
TDARACNE	30
TDbasedUFE	91
TDbasedUFEadv	72
TEKRABber	207
TENxIO	73
tenXplore	69
TEQC	108
ternarynet	82
terraTCGAdata	82
TFARM	73
TFBSTools	3577
TFEA.ChIP	99
TFHAZ	77
TFutils	107
tidybulk	327
tidyCoverage	39
tidyFlowCore	17
tidyomics	53
tidySingleCellExperiment	240
tidySpatialExperiment	49
tidySummarizedExperiment	412
tidytof	14
tigre	108
TileDBArray	76
tilingArray	180
timecourse	111
timeOmics	103
timescape	92
TimeSeriesExperiment	16
TimiRGeN	48
TIN	78
TissueEnrich	273
TitanCNA	111
tkWidgets	1346
tLOH	67
TMixClust	99
TNBC.CMS	47
TnT	50
TOAST	429
tofsims	17
tomoda	73
tomoseqr	63
TOP	62
ToPASeq	18
topconfects	195
topdownr	101
topGO	3034
ToxicoGx	88
TPP	127
TPP2D	75
tpSVG	37
tracktables	163
trackViewer	584
tradeSeq	533
TrajectoryGeometry	58
TrajectoryUtils	1992
transcriptogramer	87
transcriptR	99
transformGamPoi	94
transite	82
tRanslatome	236
transmogR	37
transomics2cytoscape	84
TransView	86
TraRe	8
traseR	84
Travel	4
traviz	77
TreeAndLeaf	148
treeclimbR	39
treeio	20427
treekoR	79
TreeSummarizedExperiment	1924
TREG	66
trena	30
TReNA	2
Trendy	80
TRESS	111
tricycle	264
triform	30
trigger	101
trio	131
triplex	95
tripr	67
tRNA	164
tRNAdbImport	140
tRNAscanImport	91
TRONCO	97
TSAR	53
TSCAN	704
tscR	14
tspair	33
TSRchitect	18
TSSi	24
ttgsea	104
TTMap	80
TurboNorm	97
TVTB	91
tweeDEseq	176
twilight	142
twoddpcr	79
txcutr	67
txdbmaker	1864
tximeta	1090
tximport	3445
TxRegInfra	13
TypeInfo	81
UCell	1479
UCSC.utils	17631
Ularcirc	88
UMI4Cats	77
uncoverappLib	77
UNDO	87
unifiedWMWqPCR	56
UniProt.ws	443
Uniquorn	85
universalmotif	734
updateObject	61
UPDhmm	34
uSORT	84
VAExprs	65
VanillaICE	300
VarCon	65
variancePartition	970
VariantAnnotation	12240
VariantExperiment	65
VariantFiltering	114
VariantTools	188
vasp	5
VaSP	79
vbmp	120
VCFArray	81
VDJdive	70
Vega	22
VegaMC	87
velociraptor	159
veloviz	63
VennDetail	271
VERSO	66
vidger	137
viper	756
virtualArray	10
ViSEAGO	146
VisiumIO	40
vissE	118
Voyager	170
VplotR	78
vsclust	70
vsn	5165
vtpnet	109
vulcan	89
waddR	68
wateRmelon	855
wavClusteR	86
waveTiling	28
weaver	94
webbioc	101
weitrix	77
widgetInvoke	4
widgetTools	1345
wiggleplotr	195
wpm	78
wppi	50
Wrench	1694
XBSeq	18
XCIR	8
xcms	1811
xcore	67
XDE	109
Xeva	143
XINA	71
xmapbridge	82
xmapcore	7
XNAString	70
xps	26
XVector	49194
y2hStat	1
yamss	88
YAPSA	109
yaqcaffy	32
yarn	148
zellkonverter	1356
zenith	148
zFPKM	133
zinbwave	1014
zitools	11
zlibbioc	53774
ZygosityPredictor	63