Package	Download_score
a4	89
a4Base	139
a4Classif	117
a4Core	165
a4Preproc	182
a4Reporting	119
ABAEnrichment	11
ABarray	76
abseqR	60
ABSSeq	119
acde	66
ACE	90
aCGH	214
ACME	88
ADaCGH2	75
ADAM	129
ADAMgui	92
adaptest	5
adductomicsR	57
ADImpute	74
adSplit	72
adverSCarial	35
AffiXcan	59
affxparser	1602
affy	8439
affycomp	98
AffyCompatible	23
affyContam	102
affycoretools	402
AffyExpress	14
affyILM	70
affyio	8276
affylmGUI	87
affyPara	16
affypdnn	14
affyPLM	1173
affyQCReport	19
AffyRNADegradation	64
AffyTiling	8
AGDEX	67
aggregateBioVar	73
Agi4x44PreProcess	4
agilp	92
AgiMicroRna	137
AHMassBank	52
AIMS	424
airpart	59
alabaster	46
alabaster.base	740
alabaster.bumpy	87
alabaster.files	39
alabaster.mae	92
alabaster.matrix	721
alabaster.ranges	705
alabaster.sce	305
alabaster.schemas	691
alabaster.se	693
alabaster.spatial	87
alabaster.string	102
alabaster.vcf	88
ALDEx2	1175
alevinQC	87
AllelicImbalance	103
AlphaBeta	58
AlphaMissenseR	19
alpine	40
ALPS	4
AlpsNMR	67
alsace	16
altcdfenvs	119
AMARETTO	133
AMOUNTAIN	95
amplican	84
ampliQueso	11
AnalysisPageServer	7
anamiR	7
Anaquin	58
ANCOMBC	1233
AneuFinder	87
ANF	54
animalcules	122
annaffy	273
AnnBuilder	1
annmap	117
annotate	17846
AnnotationDbi	36558
AnnotationFilter	10470
AnnotationForge	2417
AnnotationFuncs	18
AnnotationHub	11380
AnnotationHubData	371
annotationTools	130
annotatr	471
anota	87
anota2seq	78
antiProfiles	64
AnVIL	570
AnVILBilling	52
AnVILPublish	53
AnVILWorkflow	44
APAlyzer	71
apComplex	68
apeglm	3463
APL	133
applera	1
appreci8R	101
aroma.light	1967
ArrayExpress	424
ArrayExpressHTS	17
arrayMagic	2
arrayMvout	64
arrayQCplot	1
arrayQuality	122
arrayQualityMetrics	496
ArrayTools	17
ArrayTV	14
ARRmNormalization	59
artMS	81
ASAFE	50
ASEB	60
ASGSCA	61
ASICS	87
asmn	3
ASpediaFI	6
ASpli	103
AssessORF	71
ASSET	109
ASSIGN	111
ASURAT	65
ATACCoGAPS	48
ATACseqQC	368
ATACseqTFEA	64
atena	111
AtlasRDF	8
atSNP	73
attract	78
AUCell	2231
autonomics	53
Autotuner	6
AWFisher	62
awst	53
BaalChIP	61
BAC	16
bacon	107
BADER	65
BadRegionFinder	58
BAGS	62
ballgown	637
bambu	284
bamsignals	1109
BANDITS	109
bandle	63
Banksy	37
banocc	79
barcodetrackR	57
basecallQC	68
BaseSpaceR	66
Basic4Cseq	67
BASiCS	170
BASiCStan	71
BasicSTARRseq	57
basilisk	4541
basilisk.utils	4078
batchelor	3834
BatchQC	109
BayesKnockdown	58
BayesPeak	16
BayesSpace	230
bayNorm	83
baySeq	448
BBCAnalyzer	59
BCRANK	73
bcSeq	61
BDMMAcorrect	33
beachmat	15303
beachmat.hdf5	56
beadarray	715
beadarraySNP	53
BeadDataPackR	661
BeadExplorer	1
BEARscc	56
BEAT	62
BEclear	71
beer	57
benchdamic	87
BERT	15
betaHMM	14
betr	9
bettr	13
BG2	45
bgafun	12
BgeeCall	48
BgeeDB	121
BGmix	23
bgx	65
BHC	83
BicARE	135
BiFET	59
BiGGR	69
bigmelon	65
bigmemoryExtras	15
bigPint	34
bim	1
BindingSiteFinder	59
bioassayR	77
Biobase	47477
biobroom	196
biobtreeR	53
bioCancer	73
BioCartaImage	34
BiocBaseUtils	5654
BiocBook	43
BiocCaseStudies	16
BiocCheck	1640
biocDatasets	1
BiocDockerManager	18
BiocFHIR	47
BiocFileCache	26133
BiocGenerics	55778
biocGraph	175
BiocHail	39
BiocHubsShiny	82
BiocInstaller	427
BiocIO	19477
BiocNeighbors	10419
BiocOncoTK	77
BioCor	83
BiocParallel	41404
BiocPkgTools	160
biocroxytest	25
BiocSet	239
BiocSingular	12070
BiocSklearn	73
BiocStyle	6440
biocthis	233
BiocVersion	58765
biocViews	4222
BiocWorkflowTools	176
biodb	194
biodbChebi	85
biodbExpasy	49
biodbHmdb	60
biodbKegg	66
biodbLipidmaps	42
biodbMirbase	32
biodbNcbi	51
biodbNci	46
biodbUniprot	51
bioDist	258
biomaRt	23595
BioMedR	2
biomformat	5501
BioMM	19
BioMVCClass	62
biomvRCNS	60
BioNAR	67
BioNERO	273
BioNet	279
BioNetStat	78
BioQC	117
BioSeqClass	16
biosigner	83
Biostrings	46017
biosvd	12
BioTIP	70
biotmle	63
biovizBase	5480
BiRewire	119
birta	17
birte	6
biscuiteer	67
BiSeq	148
BitSeq	22
blacksheepr	60
blima	57
BLMA	71
BloodGen3Module	135
bluster	5108
bnbc	131
bnem	60
BOBaFIT	59
borealis	52
BPRMeth	93
BRAIN	112
brainflowprobes	47
brainImageR	2
BrainSABER	7
BrainStars	14
branchpointer	74
breakpointR	62
brendaDb	52
BREW3R.r	11
BRGenomics	141
bridge	16
BridgeDbR	80
BrowserViz	173
BrowserVizDemo	2
BSgenome	13629
BSgenomeForge	110
bsseq	1428
BubbleTree	72
BufferedMatrix	96
BufferedMatrixMethods	61
bugsigdbr	161
BUMHMM	69
bumphunter	2737
BumpyMatrix	558
BUS	60
BUScorrect	52
BUSpaRse	195
BUSseq	50
CaDrA	35
CAEN	46
CAFE	72
CAGEfightR	168
cageminer	60
CAGEr	134
CALIB	14
calm	46
CAMERA	497
CAMTHC	3
CaMutQC	13
canceR	87
cancerclass	79
CancerInSilico	17
CancerMutationAnalysis	15
CancerSubtypes	100
CAnD	9
caOmicsV	7
cardelino	62
Cardinal	172
CardinalIO	126
CARNIVAL	145
casper	62
CATALYST	503
Category	1915
categoryCompare	72
CausalR	67
cbaf	63
CBEA	109
cBioPortalData	429
CBNplot	137
cbpManager	55
ccfindR	96
ccImpute	50
ccmap	80
CCPlotR	45
CCPROMISE	64
ccrepe	91
CDI	34
celaref	73
celda	680
CellaRepertorium	51
CellBarcode	65
cellbaseR	73
CellBench	133
cellGrowth	13
cellHTS	10
cellHTS2	216
CelliD	249
cellity	63
CellMapper	65
cellmigRation	48
CellMixS	81
CellNOptR	194
cellscape	44
CellScore	53
CellTrails	56
cellTree	13
cellxgenedp	103
CEMiTool	144
censcyt	60
Cepo	169
ceRNAnetsim	49
CeTF	82
CexoR	64
CFAssay	51
cfdnakit	47
cfDNAPro	59
cfTools	47
CGEN	65
CGHbase	431
CGHcall	395
cghMCR	68
CGHnormaliter	70
CGHregions	82
ChAMP	562
CHARGE	5
charm	15
ChemmineOB	321
ChemmineR	836
CHETAH	98
ChIC	17
Chicago	95
chihaya	61
chimera	18
chimeraviz	106
ChIPanalyser	56
ChIPComp	64
chipenrich	159
ChIPexoQual	68
ChIPpeakAnno	1008
ChIPQC	352
ChIPseeker	1827
chipseq	628
ChIPseqR	85
ChIPSeqSpike	8
ChIPsim	85
ChIPXpress	102
chopsticks	93
chroGPS	14
chromDraw	57
ChromHeatMap	126
ChromoViz	1
chromPlot	150
ChromSCape	68
chromstaR	89
chromswitch	22
chromVAR	1128
CHRONOS	58
cicero	212
CIMICE	52
CINdex	73
circRNAprofiler	74
CircSeqAlignTk	55
cisPath	57
CiteFuse	90
ClassifyR	305
cleanUpdTSeq	106
cleaver	196
clevRvis	52
clippda	65
clipper	102
cliProfiler	50
cliqueMS	114
Clomial	56
Clonality	28
clonotypeR	19
clst	95
clstutils	63
CluMSID	67
ClustAll	12
clustComp	64
clusterExperiment	352
ClusterFoldSimilarity	14
ClusterJudge	55
clusterProfiler	17683
clusterSeq	46
ClusterSignificance	58
clusterStab	79
clustifyr	141
ClustIRR	35
CMA	116
cmapR	397
CNAnorm	66
CNEr	3320
cn.farms	65
cn.mops	261
CNORdt	67
CNORfeeder	73
CNORfuzzy	69
CNORode	93
CNPBayes	6
CNTools	134
CNVfilteR	60
CNVgears	27
cnvGSA	66
CNViz	54
CNVMetrics	52
CNVPanelizer	62
CNVRanger	127
CNVrd2	64
CNVtools	12
cobindR	13
CoCiteStats	57
COCOA	71
codelink	76
CODEX	103
coexnet	12
CoGAPS	270
cogena	87
cogeqc	68
Cogito	49
coGPS	59
COHCAP	56
cola	132
comapr	60
combi	74
coMET	83
coMethDMR	56
compartmap	34
COMPASS	80
compcodeR	85
compEpiTools	72
CompGO	12
ComplexHeatmap	14193
CompoundDb	278
ComPrAn	44
compSPOT	29
conclus	5
concordexR	69
condcomp	2
condiments	92
CONFESS	61
consensus	51
ConsensusClusterPlus	2973
consensusDE	71
consensusOV	112
consensusSeekeR	105
consICA	119
CONSTANd	51
contiBAIT	49
conumee	152
convert	149
copa	58
COPDSexualDimorphism	2
copynumber	135
CopyNumber450k	7
CopyNumberPlots	153
CopywriteR	25
coRdon	175
CoRegFlux	2
CoRegNet	40
CoreGx	368
Cormotif	59
CorMut	13
coRNAi	11
corral	76
CORREP	49
coseq	124
CoSIA	49
cosmiq	68
cosmo	2
cosmoGUI	2
cosmosR	69
COSNet	52
COTAN	73
CountClust	11
countsimQC	168
covEB	51
CoverageView	68
covRNA	57
cpvSNP	59
cqn	288
CRImage	82
CRISPRball	15
crisprBase	161
crisprBowtie	153
crisprBwa	61
crisprDesign	134
crisprScore	163
CRISPRseek	160
crisprseekplus	28
crisprShiny	14
CrispRVariants	132
crisprVerse	70
crisprViz	114
crlmm	251
CrossICC	2
crossmeta	172
CSAR	79
csaw	601
csdR	47
CSSP	26
CSSQ	49
ctc	283
CTdata	44
CTDquerier	55
CTexploreR	17
ctgGEM	4
cTRAP	71
ctsGE	60
CTSV	52
cummeRbund	226
CuratedAtlasQueryR	54
customCMPdb	55
customProDB	84
CVE	5
cyanoFilter	53
cycle	61
cydar	88
cypress	12
CytoDx	71
cytofast	4
cytofkit	23
CyTOFpower	53
cytofQC	55
CytoGLMM	98
cytoKernel	48
cytolib	2781
cytomapper	313
CytoMDS	12
cytoMEM	93
CytoML	455
CytoPipeline	91
CytoPipelineGUI	31
CytoTree	14
cytoviewer	98
dada2	2244
dagLogo	84
daMA	59
DAMEfinder	60
DaMiRseq	122
DAPAR	133
dar	15
DART	64
DASC	1
DASiR	7
dasper	15
DAVIDQuery	6
DBChIP	17
dcanr	125
DCATS	41
dce	68
dcGSA	53
DChIPRep	8
ddCt	92
ddgraph	10
ddPCRclust	74
dearseq	174
debCAM	62
debrowser	178
DECIPHER	2832
deco	9
DEComplexDisease	9
decompTumor2Sig	130
DeconRNASeq	219
decontam	1672
decontX	108
deconvR	67
decoupleR	1005
DEDS	14
DeepBlueR	42
DeepPINCS	81
deepSNV	163
DEFormats	254
DegCre	13
DegNorm	59
DEGraph	68
DEGreport	584
DEGseq	162
DelayedArray	42789
DelayedDataFrame	65
DelayedMatrixStats	16226
DelayedRandomArray	92
DelayedTensor	51
DELocal	60
deltaCaptureC	50
deltaGseg	57
DeMAND	51
DeMixT	96
demuxmix	228
demuxSNP	41
densvis	2910
DEP	496
DepecheR	115
DepInfeR	46
DeProViR	12
DEqMS	222
derfinder	570
derfinderHelper	567
derfinderPlot	146
DEScan2	67
DESeq	212
DESeq2	21558
DEsingle	246
DESpace	58
destiny	684
DEsubs	58
DEWSeq	58
DExMA	61
DEXSeq	1519
dexus	17
DFP	56
DIAlignR	57
DiffBind	1069
diffcoexp	192
diffcyt	371
DifferentialRegulation	55
diffGeneAnalysis	57
diffHic	104
DiffLogo	65
diffloop	26
diffuStats	67
diffUTR	53
diggit	54
Dino	57
dinoR	12
Director	46
dir.expiry	4062
DirichletMultinomial	4654
discordant	84
DiscoRhythm	65
distinct	231
dittoSeq	1432
divergence	46
dks	53
DMCFB	45
DMCHMM	54
DMRcaller	82
DMRcate	864
DMRforPairs	25
DMRScan	50
dmrseq	202
DNABarcodeCompatibility	46
DNABarcodes	165
DNAcopy	5181
DNAfusion	49
DNaseR	4
DNAshapeR	78
domainsignatures	11
DominoEffect	58
doppelgangR	137
DOQTL	9
Doscheda	62
DOSE	17273
doseR	50
doubletrouble	65
dpeak	22
drawProteins	190
dreamlet	52
DRIMSeq	298
DriverNet	59
DropletUtils	2602
drugTargetInteractions	60
DrugVsDisease	136
dSimer	6
DSS	903
dStruct	49
DTA	86
dualKS	15
Dune	47
DupChecker	5
dupRadar	108
dyebias	62
DynDoc	1288
easier	142
EasyCellType	57
easylift	36
EasyqpcR	15
easyreporting	53
easyRNASeq	182
EBarrays	224
EBcoexpress	78
EBImage	2682
EBSEA	50
EBSeq	406
EBSeqHMM	47
ecolitk	60
EDASeq	1782
edd	2
EDDA	16
edge	101
edgeR	22689
EDIRquery	41
eds	353
eegc	78
EGAD	64
EGSEA	149
eiR	67
eisa	14
eisaR	112
ELBOW	14
ELMER	179
EMDomics	73
EmpiricalBrownsMethod	131
ENCODExplorer	7
EnhancedVolcano	4311
enhancerHomologSearch	56
EnMCB	53
ENmix	217
EnrichedHeatmap	580
EnrichmentBrowser	566
enrichplot	17142
enrichTF	67
enrichViewNet	43
ensembldb	9947
ensemblVEP	161
ENVISIONQuery	13
epialleleR	59
EpiCompare	48
epidecodeR	47
EpiDISH	596
epigenomix	64
epigraHMM	57
epihet	8
EpiMix	51
epimutacions	59
epiNEM	148
epiregulon	12
epiregulon.extra	12
epistack	52
epistasisGA	44
EpiTxDb	87
epivizr	122
epivizrChart	58
epivizrData	131
epivizrServer	147
epivizrStandalone	61
erccdashboard	66
erma	96
ERSSA	51
esATAC	92
escape	367
escheR	114
esetVis	76
eudysbiome	47
evaluomeR	53
EventPointer	66
EWCE	153
ExCluster	46
ExiMiR	60
exomeCopy	290
exomePeak	19
exomePeak2	98
exonmap	2
ExperimentHub	7552
ExperimentHubData	297
ExperimentSubset	56
explorase	13
ExploreModelMatrix	158
ExpressionAtlas	175
ExpressionView	15
exprExternal	0
externalVector	2
extraChIPs	69
fabia	177
facopy	5
factDesign	56
factR	55
faers	16
FamAgg	76
famat	60
farms	44
fastLiquidAssociation	56
FastqCleaner	81
fastreeR	72
fastseg	755
fbat	2
FCBF	41
fCCAC	56
fCI	54
fcoex	73
fcScan	56
fdrame	53
FEAST	114
FeatSeekR	42
fedup	51
FELLA	127
FEM	20
fenr	37
ffpe	71
fgga	50
FGNet	114
fgsea	16679
FilterFFPE	48
findIPs	10
FindIT2	57
FindMyFriends	10
FISHalyseR	52
fishpond	277
FitHiC	66
flagme	60
FLAMES	77
flipflop	13
flowAI	552
flowBeads	63
flowBin	70
flowcatchR	61
flowCHIC	62
flowCL	18
flowClean	200
flowClust	818
flowCore	2873
flowCut	104
flowCyBar	56
flowDensity	262
flowFit	15
flowFlowJo	6
flowFP	162
flowGate	72
flowGraph	52
flowMap	45
flowMatch	70
flowMeans	159
flowMerge	140
flowPeaks	181
flowPhyto	5
flowPloidy	65
flowPlots	59
flowQ	9
flowQB	16
FlowRepositoryR	9
FlowSOM	1081
flowSpecs	71
flowSpy	4
flowStats	518
flowTime	66
flowTrans	86
flowType	16
flowUtils	40
flowViz	1043
flowVS	101
flowWorkspace	1295
fmcsR	267
fmrs	119
fobitools	51
focalCall	6
FoldGO	28
FourCSeq	10
FRASER	113
frenchFISH	43
FRGEpistasis	58
frma	157
frmaTools	75
FScanR	22
FunChIP	52
FunciSNP	13
funtooNorm	62
FuseSOM	53
GA4GHclient	110
GA4GHshiny	66
gaga	104
gage	806
gaggle	45
gaia	25
GAPGOM	8
GAprediction	53
garfield	55
GARS	60
GateFinder	61
gatom	37
gaucho	11
GBScleanR	58
gcapc	57
gcatest	57
gCMAP	15
gCMAPWeb	13
gCrisprTools	60
gcrma	1369
GCSConnection	4
GCSFilesystem	5
GCSscore	21
GDCRNATools	297
gDNAx	51
gDR	39
gDRcore	82
gDRimport	85
gDRstyle	69
gDRutils	104
GDSArray	147
gdsfmt	2081
GeDi	14
geecc	7
GEM	58
gemini	53
gemma.R	60
genArise	58
genbankr	112
gene2pathway	3
GeneAccord	8
GeneAnswers	22
geneAttribution	53
GeneBreak	64
geneClassifiers	53
GENE.E	11
GeneExpressionSignature	70
genefilter	12753
genefu	416
GeneGA	48
GeneGeneInteR	55
GeneGroupAnalysis	2
GeneMeta	102
GeneNetworkBuilder	77
GeneOverlap	447
geneplast	93
geneplotter	6777
GeneR	3
geneRecommender	57
GeneRegionScan	64
GeneRfold	1
geneRxCluster	58
GeneSelectMMD	106
GeneSelector	13
GENESIS	346
GeneSpring	2
GeneStructureTools	79
geNetClassifier	148
GeneticsBase	2
GeneticsDesign	13
GeneticsPed	102
GeneTonic	274
GeneTraffic	2
GeneTS	2
geneXtendeR	112
GENIE3	1174
genoCN	57
GenoGAM	10
genomation	657
GenomAutomorphism	42
GenomeBase	0
GenomeGraphs	18
GenomeInfoDb	57592
genomeIntervals	179
genomes	68
GenomicAlignments	23927
GenomicDataCommons	1159
GenomicDistributions	91
GenomicFeatures	20126
GenomicFiles	1304
genomicInstability	51
GenomicInteractionNodes	49
GenomicInteractions	358
GenomicOZone	59
GenomicPlot	55
GenomicRanges	42574
GenomicScores	678
GenomicSuperSignature	57
GenomicTuples	52
Genominator	15
genoset	22
genotypeeval	14
GenoView	1
genphen	8
GenProSeq	41
GenRank	6
GenVisR	277
GeoDiff	74
GEOexplorer	63
GEOfastq	71
GEOmetadb	236
GeomxTools	400
GEOquery	9132
GEOsearch	3
GEOsubmission	58
GeoTcgaData	77
gep2pep	54
gespeR	87
getDEE2	49
geva	45
GEWIST	50
gff3Plotter	1
gg4way	35
GGBase	17
ggbio	2137
ggcyto	903
ggkegg	237
ggmanh	143
ggmsa	509
GGPA	47
ggsc	45
ggspavis	155
GGtools	19
ggtree	20461
ggtreeDendro	60
ggtreeExtra	1032
ggtreeSpace	12
GIGSEA	47
ginmappeR	13
gINTomics	9
girafe	90
GISPA	43
GLAD	225
GladiaTOX	49
Glimma	1198
glmGamPoi	4083
glmSparseNet	153
GlobalAncova	995
globalSeq	54
globaltest	1725
GloScope	32
gmapR	169
GmicR	67
gmoviz	54
GMRP	54
GNET2	53
GNOSIS	42
goCluster	0
GOexpress	88
GOfuncR	294
GOFunction	14
GoogleGenomics	6
GOpro	130
goProfiles	125
GOSemSim	16906
goseq	1197
GOSim	112
goSorensen	55
goSTAG	62
GOstats	1732
GOsummaries	51
GOTHiC	88
goTools	66
GPA	52
gpart	15
gpls	182
gprege	14
gpuMagic	52
gQTLBase	11
gQTLstats	9
GrafGen	11
gramm4R	3
GRaNIE	143
granulator	119
graper	51
graph	18435
GraphAlignment	59
GraphAT	58
graphite	2995
GraphPAC	104
GRENITS	59
GreyListChIP	993
GRmetrics	87
groHMM	74
GRridge	14
GSALightning	54
GSAR	87
GSCA	61
gscreend	48
GSEABase	8632
GSEABenchmarkeR	84
GSEAlm	81
GSEAmining	63
gsean	60
GSgalgoR	50
GSReg	63
GSRI	63
GSVA	6131
gtrellis	132
GUIDEseq	79
Guitar	131
Gviz	3879
GWAS.BAYES	51
gwascat	614
GWASTools	603
gwasurvivr	85
GWENA	191
gypsum	511
h5vc	84
hapFabia	58
Harman	169
HarmonizR	46
Harshlight	73
hca	63
HCABrowser	4
HCAExplorer	2
HCAMatrixBrowser	1
HCsnip	10
HDF5Array	12945
HDTD	49
heatmaps	274
Heatplus	411
HelloRanges	134
HELP	58
HEM	56
hermes	110
HERON	34
Herper	155
hexbin	24
HGC	63
hiAnnotator	109
HIBAG	127
HicAggR	11
HiCBricks	149
HiCcompare	278
HiCDCPlus	74
HiCDOC	105
HiCExperiment	146
HiContacts	108
HiCool	68
hicrep	10
hicVennDiagram	37
hierGWAS	56
hierinf	45
HilbertCurve	88
HilbertVis	181
HilbertVisGUI	39
HiLDA	71
hipathia	139
HIPPO	49
hiReadsProcessor	59
HIREewas	51
HiTC	135
hmdbQuery	72
HMMcopy	260
hoodscanR	50
hopach	323
HPAanalyze	126
hpar	274
HPAStainR	13
HPiP	52
HTqPCR	155
HTSanalyzeR	16
HTSeqGenie	55
htSeqTools	15
HTSFilter	217
HubPub	118
HumanTranscriptomeCompendium	50
hummingbird	44
HybridExpress	14
HybridMTest	131
hypeR	82
hyperdraw	116
hypergraph	164
iASeq	53
iasva	51
iBBiG	125
ibh	55
iBMQ	49
iCARE	120
Icens	464
icetea	55
iCheck	55
iChip	55
iClusterPlus	354
iCNV	54
iCOBRA	179
ideal	104
IdeoViz	68
idiogram	60
IdMappingAnalysis	11
IdMappingRetrieval	13
idpr	66
idr2d	53
IFAA	46
iFlow	2
iGC	52
IgGeneUsage	49
igvR	111
igvShiny	15
IHW	712
illuminaio	2924
ILoReg	45
imageHTS	22
IMAS	59
imcRtools	200
Imetagene	7
IMMAN	50
ImmuneSpaceR	59
immunoClust	67
immunotation	52
IMPCdata	49
ImpulseDE	6
ImpulseDE2	11
impute	10380
INDEED	47
iNETgrate	48
infercnv	1063
infinityFlow	69
Informeasure	41
InPAS	61
INPower	57
inSilicoDb	12
inSilicoMerging	13
INSPEcT	70
INTACT	48
InTAD	55
intansv	81
interacCircos	62
InteractionSet	1871
InteractiveComplexHeatmap	389
interactiveDisplay	105
interactiveDisplayBase	9681
InterCellar	76
IntEREst	71
InterMineR	77
IntOMICS	33
IntramiRExploreR	50
inveRsion	15
IONiseR	72
iontree	11
iPAC	131
iPath	44
ipdDb	119
IPO	122
IPPD	13
IRanges	50973
IRISFGM	75
IrisSpatialFeatures	3
ISAnalytics	57
iSEE	463
iSEEde	55
iSEEfier	14
iSEEhex	145
iSEEhub	123
iSEEindex	47
iSEEpathways	42
iSEEu	112
iSeq	53
ISLET	45
iSNetwork	1
isobar	84
IsoBayes	31
IsoCorrectoR	101
IsoCorrectoRGUI	61
IsoformSwitchAnalyzeR	259
IsoGeneGUI	16
ISoLDE	45
isomiRs	139
iSPlot	1
ITALICS	61
iterativeBMA	61
iterativeBMAsurv	55
iterClust	44
iteremoval	8
IVAS	80
ivygapSE	53
IWTomics	53
jmosaics	6
joda	13
JunctionSeq	11
karyoploteR	872
katdetectr	56
KBoost	46
KCsmart	65
kebabs	148
KEGGgraph	5482
KEGGlincs	70
keggorth	1
keggorthology	156
KEGGprofile	21
KEGGREST	35854
KEGGSOAP	5
kimod	6
KinSwingR	55
kissDE	61
KnowSeq	60
knowYourCG	12
LACE	125
lapmix	54
LBE	234
ldblock	82
LEA	514
LedPred	48
lefser	567
lemur	60
les	95
levi	47
lfa	289
limma	31357
limmaGUI	74
limpca	14
LINC	7
LineagePulse	38
lineagespot	48
LinkHD	51
Linnorm	225
LinTInd	52
lionessR	53
lipidr	190
LiquidAssociation	84
lisaClust	138
lmdme	56
LMGene	14
LOBSTAHS	62
loci2path	51
logicFS	88
logitT	31
Logolas	8
lol	10
LOLA	303
LoomExperiment	600
LowMACA	16
LPE	90
LPEadj	41
lpNet	66
lpsymphony	1087
LRBaseDbi	117
LRcell	51
lumi	1135
lute	15
LVSmiRNA	14
LymphoSeq	65
M3C	703
M3D	7
M3Drop	613
m6Aboost	43
maanova	19
Maaslin2	1010
Macarron	70
macat	45
maCorrPlot	56
MACPET	9
MACSQuantifyR	45
MACSr	105
maDB	3
made4	252
MADSEQ	55
maftools	2535
MAGAR	170
MAGeCKFlute	367
magpie	51
magrene	46
MAI	58
maigesPack	43
MAIT	67
makecdfenv	175
makePlatformDesign	2
MANOR	59
manta	14
MantelCorr	51
MAPFX	10
mAPKL	11
maPredictDSC	62
mapscape	53
mariner	57
marr	47
marray	1898
martini	57
maser	120
maSigPro	250
maskBAD	63
MassArray	54
massiR	61
MassSpecWavelet	1834
MAST	2046
mastR	121
matchBox	56
matchprobes	2
MatrixGenerics	39733
MatrixQCvis	133
MatrixRider	61
matter	208
MaxContrastProjection	8
MBAmethyl	42
MBASED	56
MBCB	56
MBECS	72
mbkmeans	444
mbOmic	12
mBPCR	61
MBQN	56
mbQTL	49
MBttest	52
mcaGUI	13
MCbiclust	56
MCRestimate	13
mCSEA	107
mdgsa	9
mdp	57
mdqc	103
MDTS	48
MEAL	79
MeasurementError.cor	52
MEAT	47
MEB	50
MEDIPS	110
MEDME	55
megadepth	122
MEIGOR	57
Melissa	53
memes	197
MergeMaid	15
Mergeomics	65
MeSHDbi	264
meshes	141
meshr	144
MeSHSim	2
MesKit	75
messina	57
metaArray	14
Metab	33
metabCombiner	61
metabinR	43
MetaboAnnotation	242
MetaboCoreUtils	1376
metabolomicsWorkbenchR	79
metabomxtr	57
MetaboSignal	118
metaCCA	185
MetaCyto	75
metagene	29
metagene2	69
metagenomeFeatures	8
metagenomeSeq	1667
metahdep	59
metaMS	108
MetaNeighbor	90
MetaPhOR	55
metapod	4762
metapone	64
metaSeq	71
metaseqR	18
metaseqR2	58
metavizr	12
MetaVolcanoR	53
metaX	2
MetCirc	71
MethCP	7
methimpute	61
methInheritSim	65
methodical	11
MethPed	54
MethReg	70
methrix	87
MethTargetedNGS	52
methVisual	13
methyAnalysis	19
MethylAid	92
methylCC	71
methylclock	151
methylGSA	107
methyLImp2	13
methylInheritance	66
methylKit	637
MethylMix	97
methylMnM	76
methylPipe	121
methylscaper	67
MethylSeekR	141
methylSig	74
methylumi	1453
methyvim	8
MetID	55
MetNet	53
mfa	84
Mfuzz	1193
MGFM	62
MGFR	66
MGnifyR	15
mgsa	111
mia	1482
miaSim	95
miaViz	245
MiChip	55
microbiome	1658
microbiomeDASim	58
microbiomeExplorer	82
microbiomeMarker	380
MicrobiomeProfiler	106
MicrobiotaProcess	517
microRNA	156
microSTASIS	46
MICSQTL	39
midasHLA	53
MIGSA	13
miloR	274
mimager	65
MIMOSA	29
mina	47
MineICA	77
minet	784
minfi	2359
MinimumDistance	67
MiPP	56
miQC	106
MIRA	122
MiRaGE	69
miRBaseConverter	109
miRcomp	54
mirIntegrator	68
MIRit	13
miRLAB	66
miRmine	33
miRNAmeConverter	59
miRNApath	66
miRNAtap	146
miRSM	42
miRsponge	5
miRspongeR	39
Mirsynergy	11
mirTarRnaSeq	64
missMethyl	973
missRows	54
mistyR	87
mitch	63
mitoClone2	57
mitoODE	11
mixOmics	2740
MLInterfaces	400
mlm4omics	2
MLP	139
MLSeq	156
MMAPPR2	17
MMDiff	8
MMDiff2	51
mmgmos	1
mmnet	8
MmPalateMiRNA	14
MMUPHin	116
mnem	154
moanin	137
mobileRNA	13
MobilityTransformR	42
MODA	57
ModCon	44
Modstrings	210
MOFA	6
MOFA2	453
MOGAMUN	52
mogsa	176
MoleculeExperiment	75
MOMA	56
monaLisa	138
monocle	3088
Moonlight2R	46
MoonlightR	74
MoPS	7
mosaics	142
mosbi	50
MOSim	52
Motif2Site	46
motifbreakR	214
motifcounter	59
MotifDb	676
motifmatchr	1361
motifRG	15
motifStack	740
motifTestR	12
MotIV	27
MouseFM	116
MPFE	46
mpra	60
MPRAnalyze	61
MQmetrics	39
mQTL.NMR	5
msa	1520
MSA2dist	128
MsBackendMassbank	76
MsBackendMgf	423
MsBackendMsp	254
MsBackendRawFileReader	62
MsBackendSql	68
MsCoreUtils	3504
MsDataHub	62
MSEADbi	3
MsExperiment	1068
MsFeatures	1601
msgbsR	67
MSGFgui	9
MSGFplus	12
msImpute	129
mslp	40
msmsEDA	289
msmsTests	273
MSnbase	3203
MSnID	259
MSPrep	121
msPurity	77
msqrob2	130
MsQuality	66
MSstats	500
MSstatsBig	33
MSstatsConvert	476
MSstatsLiP	76
MSstatsLOBD	49
MSstatsPTM	196
MSstatsQC	78
MSstatsQCgui	46
MSstatsSampleSize	19
MSstatsShiny	104
MSstatsTMT	277
MSstatsTMTPTM	3
MTseeker	2
MuData	58
Mulcom	74
MultiAssayExperiment	5319
MultiBaC	67
multiClust	89
multicrispr	60
MultiDataSet	1253
multiGSEA	121
multiHiCcompare	172
MultiMed	56
multiMiR	229
MultimodalExperiment	39
multiOmicsViz	41
MultiRNAflow	40
multiscan	55
multiSight	66
multistateQTL	11
multiWGCNA	57
multtest	12328
mumosa	72
MungeSumstats	1025
muscat	438
muscle	325
musicatk	80
MutationalPatterns	328
MVCClass	93
mvGST	4
MWASTools	158
mygene	336
myvariant	86
mzID	3061
mzR	3339
NADfinder	59
NanoMethViz	81
NanoStringDiff	94
NanoStringNCTools	388
NanoStringQCPro	39
nanotatoR	97
NanoTube	84
NarrowPeaks	14
NBAMSeq	100
NBSplice	9
ncdfFlow	1136
ncGTW	54
NCIgraph	116
ncRNAtools	50
ndexr	72
neaGUI	7
nearBynding	52
Nebulosa	1024
NeighborNet	23
nem	17
nempi	59
NetActivity	44
netbenchmark	7
netbiov	30
netboost	43
netboxr	8
netDx	47
nethet	55
netOmics	38
NetPathMiner	61
netprioR	49
netReg	7
netresponse	71
NetSAM	78
netSmooth	64
networkBMA	15
netZooR	61
NeuCA	39
NewWave	119
NGScopy	6
ngsReports	74
nipalsMCIA	36
nnNorm	60
nnSVG	108
NOISeq	566
nondetects	63
NoRCE	53
normalize450K	50
NormalyzerDE	167
NormqPCR	167
normr	134
NPARC	57
npGSEA	61
NTW	54
nucleoSim	58
nucleR	81
nuCpos	52
nudge	10
nullranges	171
NuPoP	73
NxtIRFcore	14
occugene	51
OCplus	80
octad	56
ODER	11
odseq	66
OGRE	56
OGSA	6
oligo	1646
oligoClasses	1693
OLIN	93
OLINgui	58
omada	43
OmaDB	204
omicade4	153
OmicCircos	186
omicplotR	60
omicRexposome	60
OmicsLonDA	20
OmicsMarkeR	7
OMICsPCA	62
omicsPrint	55
omicsViewer	53
Omixer	55
OmnipathR	531
ompBAM	104
Onassis	9
oncomix	52
oncoscanR	47
OncoScore	56
OncoSimulR	61
oneChannelGUI	12
oneSENSE	19
onlineFDR	47
ontoCAT	11
ontoProc	235
ontoTools	2
openCyto	665
openPrimeR	141
openPrimeRui	63
OpenStats	49
OperaMate	3
oposSOM	79
oppar	62
oppti	47
optimalFlow	59
OPWeight	53
OrderedList	81
ORFhunteR	53
ORFik	202
OrganismDbi	3204
Organism.dplyr	425
orthogene	327
orthos	36
OSAT	67
Oscope	90
OTUbase	63
OutlierD	14
OUTRIDER	205
OutSplice	49
OVESEG	50
PAA	69
packFinder	54
padma	46
PADOG	248
pageRank	55
PAIRADISE	81
paircompviz	63
pairedGSEA	46
pairkat	57
pairseqsim	1
pamr	5
pandaR	127
panelcn.mops	82
PAnnBuilder	13
PanomiR	67
panp	59
PANR	59
PanViz	41
PanVizGenerator	9
PAPi	17
pareg	53
parglms	52
parody	103
partCNV	33
PAST	47
Path2PPI	60
pathifier	119
pathlinkR	17
PathNet	70
PathoStat	82
pathprint	7
pathRender	62
pathVar	23
pathview	4344
pathwayPCA	77
PathwaySplice	6
PatientGeneSets	1
paxtoolsr	84
Pbase	10
pbcmc	4
pcaExplorer	469
pcaGoPromoter	13
pcaMethods	5145
PCAN	59
PCAtools	1184
pcot2	14
PCpheno	14
pcxn	50
PDATK	98
pdInfoBuilder	117
pdmclass	11
PeacoQC	221
peakPantheR	60
PECA	64
peco	49
Pedixplorer	13
pengls	43
PepsNMR	122
pepStat	53
pepXMLTab	62
PERFect	38
periodicDNA	49
perturbatr	6
pfamAnalyzeR	253
PFP	14
PGA	10
pgca	50
PGSEA	49
pgUtils	3
pgxRpi	17
phantasus	159
phantasusLite	42
PharmacoGx	278
phemd	33
phenoDist	11
PhenoGeneRanker	43
phenomis	57
phenopath	91
phenoTest	136
PhenStat	61
philr	180
PhIPData	100
phosphonormalizer	51
PhosR	113
PhyloProfile	75
phyloseq	5462
Pi	68
piano	472
pickgene	52
PICS	114
Pigengene	119
PING	70
pint	10
pipeComp	54
pipeFrame	167
PIPETS	13
PIUMA	13
pkgDepTools	21
planet	185
planttfhunter	58
plasmut	30
plateCore	14
plethy	21
plgem	113
plier	116
PloGO2	64
plotgardener	335
plotGrouper	50
PLPE	56
plrs	12
PLSDAbatch	16
plw	14
plyinteractions	43
plyranges	1271
pmm	46
pmp	122
PoDCall	48
podkat	55
pogos	61
polyester	122
Polyfit	8
POMA	92
POST	7
PoTRA	7
PowerExplorer	6
powerTCR	378
POWSC	61
ppcseq	50
PPInfer	135
ppiStats	15
pqsfinder	90
prada	20
pram	49
prebs	71
preciseTAD	60
PrecisionTrialDrawer	6
PREDA	84
predictionet	13
preprocessCore	14015
primirTSS	59
PrInCE	57
Prize	7
proActiv	64
proBAMr	55
proBatch	29
PROcess	92
procoil	64
ProCoNA	12
proDA	237
proFIA	12
profileplyr	231
profileScoreDist	50
progeny	414
projectR	111
pRoloc	262
pRolocGUI	87
PROMISE	104
PROPER	87
PROPS	55
Prostar	79
prot2D	12
proteasy	27
proteinProfiles	54
ProteoDisco	53
ProteomicsAnnotationHubData	10
ProteoMM	79
proteoQC	8
protGear	56
ProtGenerics	11617
PSEA	43
psichomics	74
PSICQUIC	22
PSMatch	554
psygenet2r	73
ptairMS	50
PubScore	4
pulsedSilac	6
puma	99
PureCN	159
pvac	55
pvca	247
Pviz	77
pwalign	944
PWMEnrich	179
pwOmics	120
pwrEWAS	26
qckitfastq	59
qcmetrics	97
QDNAseq	376
QFeatures	1579
qmtools	53
qpcrNorm	64
qpgraph	183
qPLEXanalyzer	73
qrqc	22
qsea	65
qsmooth	146
QSutils	69
qsvaR	129
QTLExperiment	34
Qtlizer	52
QUALIFIER	15
quantiseqr	443
quantro	348
quantsmooth	626
QuartPAC	63
QuasR	357
QuaternaryProd	75
QUBIC	136
qusage	393
qvalue	17034
R3CPET	56
r3Cseq	88
R453Plus1Toolbox	68
R4RNA	622
RadioGx	67
raer	35
RaggedExperiment	931
RAIDS	37
rain	90
rama	16
RamiGO	10
ramr	47
ramwas	128
RandomWalkRestartMH	105
randPack	57
randRotation	45
RankProd	287
RAREsim	44
RareVariantVis	62
Rariant	14
Rarr	127
rawrr	207
RbcBook1	101
Rbec	54
RBGL	9401
RBioFormats	120
RBioinf	65
rBiopaxParser	170
rBLAST	24
RBM	59
Rbowtie	511
Rbowtie2	307
rbsurv	64
Rbwa	102
Rcade	19
RCAS	133
RCASPAR	53
rcellminer	66
rCGH	111
Rchemcpp	13
RchyOptimyx	14
RcisTarget	832
RCM	63
Rcollectl	30
Rcpi	121
RCSL	37
Rcwl	105
RcwlPipelines	97
RCX	95
RCy3	950
RCyjs	76
RCytoscape	11
RDAVIDWebService	32
Rdbi	3
RdbiPgSQL	2
rDGIdb	78
Rdisop	453
RDRToolbox	125
ReactomeContentService4R	105
ReactomeGraph4R	46
ReactomeGSA	222
ReactomePA	2386
readat	7
ReadqPCR	196
reb	12
REBET	45
rebook	161
receptLoss	44
reconsi	52
recount	400
recount3	308
recountmethylation	65
recoup	57
RedeR	332
RedisParam	45
REDseq	84
RefNet	13
RefPlus	38
RegEnrich	102
regionalpcs	38
RegionalST	45
regioneR	2046
regioneReloaded	48
regionReport	129
regsplice	53
regutools	62
REMP	71
Repitools	303
ReportingTools	711
reposTools	0
RepViz	108
ReQON	45
ResidualMatrix	3474
RESOLVE	53
Resourcerer	5
restfulSE	118
retrofit	45
ReUseData	46
rexposome	104
rfaRm	45
Rfastp	140
rflowcyt	2
rfPred	58
rGADEM	302
RGalaxy	16
rGenomeTracks	42
Rgin	7
RGMQL	50
RgnTX	45
rgoslin	73
RGraph2js	55
Rgraphviz	9787
rGREAT	671
RGSEA	69
rgsepd	50
rhdf5	19623
rhdf5client	149
rhdf5filters	18963
Rhdf5lib	23602
Rhisat2	223
Rhtslib	24451
rHVDM	12
RiboCrypt	53
RiboDiPA	52
RiboProfiling	83
ribor	49
riboSeqR	52
ribosomeProfilingQC	81
rifi	41
rifiComparative	38
RImmPort	48
Ringo	322
Rintact	1
RIPAT	25
RIPSeeker	25
Risa	72
RITAN	64
RIVER	54
RJMCMCNucleosomes	57
RLassoCox	52
RLMM	55
RLSeq	34
RMAGEML	2
Rmagpie	58
RMAPPER	3
RMassBank	103
rMAT	11
rmelting	68
RmiR	14
Rmmquant	51
rmspc	56
RNAAgeCalc	70
RNAdecay	40
rnaEditr	52
RNAinteract	80
RNAither	16
RNAmodR	115
RNAmodR.AlkAnilineSeq	62
RNAmodR.ML	54
RNAmodR.RiboMethSeq	56
RNAprobR	7
RNAsense	46
rnaseqcomp	60
RNAseqCovarImpute	33
rnaSeqMap	16
RNASeqPower	147
RNASeqR	7
RnaSeqSampleSize	93
RnBeads	288
Rnits	54
roar	62
roastgsa	32
ROC	1033
ROCpAI	45
RolDE	51
Roleswitch	13
Rolexa	8
rols	442
ROntoTools	214
ropls	1220
ROSeq	50
ROTS	211
RPA	106
rprimer	74
RProtoBufLib	2720
RpsiXML	19
rpx	268
Rqc	265
rqt	51
rqubic	84
rRDP	65
Rredland	1
RRHO	93
rrvgo	466
Rsamtools	23325
rsbml	156
rScudo	53
rsemmed	45
RSeqAn	82
rSFFreader	10
RSNPper	1
Rsubread	2229
RSVSim	66
rSWeeP	48
rTANDEM	17
RTCA	60
RTCGA	547
RTCGAToolbox	573
RTN	174
RTNduals	81
RTNsurvival	63
RTools4TB	2
RTopper	60
Rtpca	48
rtracklayer	21456
Rtreemix	60
rTRM	157
rTRMui	65
runibic	80
Ruuid	4
RUVcorr	58
RUVnormalize	68
RUVSeq	930
Rvisdiff	33
RVS	52
RWebServices	3
rWikiPathways	389
S4Arrays	37088
S4Vectors	54767
safe	628
SAGElyzer	1
sagenhaft	56
SAGx	17
SAIGEgds	76
samExploreR	7
sampleClassifier	57
SamSPECTRAL	149
sangeranalyseR	178
sangerseqR	898
SANTA	55
sapFinder	13
saps	2
SARC	35
sarks	46
saseR	14
satuRn	274
savR	27
SBGNview	172
sbgr	1
SBMLR	68
SC3	389
Scale4C	47
ScaledMatrix	11975
scAlign	17
scanMiR	80
scanMiRApp	60
scAnnotatR	143
SCAN.UPC	163
SCANVIS	62
SCArray	79
SCArray.sat	49
SCATE	75
scater	6866
scatterHatch	43
scBFA	57
SCBN	83
scBubbletree	51
scCB2	54
scClassifR	3
scClassify	71
sccomp	98
scDataviz	81
scDblFinder	1419
scDD	139
scDDboost	46
scde	339
scDesign3	47
scds	499
SCFA	47
scFeatureFilter	52
scFeatures	65
scfind	6
scGPS	69
schex	228
scHOT	66
scider	39
scifer	54
ScISI	20
scMAGeCK	7
scmap	255
scMerge	512
scMET	50
scmeth	70
scMitoMut	13
scMultiSim	12
SCnorm	98
scone	112
Sconify	57
SCOPE	55
scoreInvHap	59
scp	140
scPCA	90
scPipe	136
scran	4761
scReClassify	47
scRecover	58
screenCounter	44
ScreenR	44
scRepertoire	410
scRNAseqApp	66
scruff	67
scry	241
scShapes	48
scsR	13
scTensor	124
scTGIF	154
scTHI	46
scTreeViz	51
scuttle	9817
scviR	49
SDAMS	57
sechm	152
segmenter	57
segmentSeq	65
selectKSigs	49
SELEX	55
SemDist	48
semisup	51
SemSim	1
SEPA	5
SEPIRA	25
seq2pathway	126
seqArchR	83
seqArchRplus	51
SeqArray	914
seqbias	74
seqCAT	57
seqCNA	48
seqcombo	56
SeqGate	45
SeqGSEA	147
seq.hotSPOT	40
seqLogo	3663
seqPattern	687
seqplots	11
seqsetvis	68
SeqSQC	101
seqTools	120
SeqVarTools	452
sesame	692
SEtools	146
sevenbridges	67
sevenC	51
SGCP	112
SGSeq	317
SharedObject	156
shinyepico	69
shiny.gosling	19
shinyMethyl	111
shinyTANDEM	12
ShortRead	6274
SIAMCAT	112
SICtools	48
sigaR	14
SigCheck	59
sigFeature	214
SigFuge	60
siggenes	3280
sights	54
signatureSearch	222
signeR	74
signet	6
signifinder	54
sigPathway	26
SigsPack	52
sigsquared	52
SIM	54
SIMAT	55
SimBindProfiles	53
SimBu	76
SIMD	53
SimFFPE	46
similaRpeak	61
SIMLR	244
simona	54
simPIC	12
simpleaffy	100
simpleSeg	70
simplifyEnrichment	766
simulatorAPMS	2
simulatorZ	9
sincell	60
single	44
SingleCellAlleleExperiment	14
SingleCellExperiment	14857
SingleCellSignalR	252
singleCellTK	258
SingleMoleculeFootprinting	54
SingleR	3934
singscore	1285
SiPSiC	46
SISPA	27
sitadela	50
sitePath	56
sizepower	63
SJava	4
sketchR	14
skewr	45
slalom	118
SLGI	15
slingshot	1459
slinky	5
SLqPCR	62
SMAD	50
SMAP	44
smartid	11
SMITE	57
smoothclust	12
SNAGEE	57
snapCGH	103
snapcount	59
snifter	137
snm	167
SNPchip	19
SNPediaR	53
SNPhood	61
snpMatrix	9
SNPRelate	1632
snpStats	2268
soGGi	351
sojourner	11
SomatiCA	9
SomaticSignatures	179
SOMNiBUS	57
SpaceMarkers	13
SpacePAC	98
spade	10
Spaniel	79
sparrow	121
SparseArray	26959
sparseDOSSA	34
sparseMatrixStats	15504
sparsenetgls	48
SparseSignatures	56
spaSim	61
SpatialCPie	74
spatialDE	105
SpatialDecon	176
SpatialExperiment	2024
SpatialFeatureExperiment	160
spatialHeatmap	171
SpatialOmicsOverlay	66
spatzie	48
speckle	162
specL	61
SpeCond	72
Spectra	1613
SpectralTAD	79
SPEM	78
SPIA	652
SPIAT	109
spicyR	185
SpidermiR	76
spikeLI	50
spiky	45
spillR	16
spkTools	55
splatter	432
splicegear	12
spliceR	15
spliceSites	14
SpliceWiz	85
SplicingFactory	43
SplicingGraphs	91
splineTCDiffExpr	0
splineTimeR	68
SPLINTER	59
splots	207
SPONGE	51
spoon	12
SpotClean	90
SPOTlight	232
spotSegmentation	11
SpotSweeper	10
spqn	48
SPsimSeq	149
SQLDataFrame	53
SQUADD	45
sRACIPE	64
SRAdb	387
sRAP	14
SRGnet	7
srnadiff	57
sscore	29
sscu	51
sSeq	173
ssize	92
sSNAPPY	117
SSPA	66
ssPATHS	45
ssrch	80
ssviz	56
stageR	181
stam	1
STAN	14
standR	119
staRank	65
StarBioTrek	50
Starr	13
STATegRa	63
Statial	66
statTarget	96
STdeconvolve	130
stepNorm	57
stepwiseCM	9
stJoincount	53
strandCheckR	54
Streamer	62
STRINGdb	1174
STROMA4	29
struct	155
Structstrings	156
structToolbox	109
StructuralVariantAnnotation	217
SubCellBarCode	54
subSeq	69
SUITOR	43
SummarizedBenchmark	48
SummarizedExperiment	38017
Summix	41
supersigs	58
supraHex	431
surfaltr	46
SurfR	12
survcomp	1072
survtype	54
Sushi	58
sva	7078
svaNUMT	59
SVAPLSseq	6
svaRetro	59
SVM2CRM	6
SVMDO	102
SWATH2stats	60
SwathXtend	69
swfdr	59
SwimR	10
switchBox	122
switchde	58
synapsis	43
synapter	109
synergyfinder	185
SynExtend	55
synlet	50
SynMut	48
syntenet	124
systemPipeR	1192
systemPipeShiny	61
systemPipeTools	52
tadar	40
TADCompare	79
tanggle	64
TAPseq	57
target	48
TargetDecoy	46
TargetScore	68
TargetSearch	71
TarSeqQC	13
TBSignatureProfiler	70
TCC	200
TCGAbiolinks	3607
TCGAbiolinksGUI	25
TCGAutils	847
TCseq	163
TDARACNE	16
TDbasedUFE	76
TDbasedUFEadv	62
TEKRABber	115
TENxIO	53
tenXplore	50
TEQC	69
ternarynet	58
terraTCGAdata	54
TFARM	50
TFBSTools	3317
TFEA.ChIP	70
TFHAZ	55
TFutils	77
tidybulk	217
tidyCoverage	14
tidyomics	18
tidySingleCellExperiment	206
tidySpatialExperiment	18
tidySummarizedExperiment	329
tigre	60
TileDBArray	58
tilingArray	145
timecourse	74
timeOmics	72
timescape	76
TimeSeriesExperiment	9
TimiRGeN	58
TIN	51
TissueEnrich	171
TitanCNA	80
tkWidgets	1287
tLOH	48
TMixClust	69
TNBC.CMS	49
TnT	40
TOAST	385
tofsims	8
tomoda	44
tomoseqr	45
TOP	48
ToPASeq	7
topconfects	168
topdownr	76
topGO	3012
ToxicoGx	69
TPP	97
TPP2D	53
tpSVG	12
tracktables	138
trackViewer	492
tradeSeq	502
TrajectoryGeometry	42
TrajectoryUtils	1885
transcriptogramer	61
transcriptR	72
transformGamPoi	76
transite	56
tRanslatome	134
transmogR	14
transomics2cytoscape	52
TransView	57
TraRe	5
traseR	54
Travel	3
traviz	60
TreeAndLeaf	130
treeclimbR	14
treeio	19827
treekoR	59
TreeSummarizedExperiment	1650
TREG	47
trena	35
TReNA	1
Trendy	61
TRESS	96
tricycle	230
triform	15
trigger	64
trio	100
triplex	57
tripr	50
tRNA	142
tRNAdbImport	115
tRNAscanImport	75
TRONCO	72
TSAR	29
TSCAN	620
tscR	16
tspair	16
TSRchitect	10
TSSi	13
ttgsea	83
TTMap	50
TurboNorm	64
TVTB	62
tweeDEseq	138
twilight	109
twoddpcr	55
txcutr	48
txdbmaker	602
tximeta	1148
tximport	3344
TxRegInfra	6
TypeInfo	51
UCell	1277
UCSC.utils	5897
Ularcirc	65
UMI4Cats	59
uncoverappLib	56
UNDO	68
unifiedWMWqPCR	51
UniProt.ws	423
Uniquorn	57
universalmotif	558
updateObject	46
UPDhmm	11
uSORT	51
VAExprs	47
VanillaICE	198
VarCon	45
variancePartition	948
VariantAnnotation	9422
VariantExperiment	49
VariantFiltering	89
VariantTools	169
vasp	3
VaSP	59
vbmp	77
VCFArray	60
VDJdive	49
Vega	12
VegaMC	54
velociraptor	122
veloviz	49
VennDetail	232
VERSO	49
vidger	100
viper	696
virtualArray	5
ViSEAGO	130
VisiumIO	15
vissE	98
Voyager	125
VplotR	56
vsclust	51
vsn	5176
vtpnet	74
vulcan	67
waddR	53
wateRmelon	742
wavClusteR	64
waveTiling	15
weaver	62
webbioc	65
weitrix	53
widgetInvoke	1
widgetTools	1288
wiggleplotr	171
wpm	57
wppi	47
Wrench	1654
XBSeq	9
XCIR	4
xcms	1770
xcore	48
XDE	65
Xeva	75
XINA	46
xmapbridge	57
xmapcore	2
XNAString	52
xps	15
XVector	47852
y2hStat	0
yamss	62
YAPSA	84
yaqcaffy	15
yarn	135
zellkonverter	1111
zenith	137
zFPKM	113
zinbwave	890
zlibbioc	51350
ZygosityPredictor	46