Package	Download_score
a4	244
a4Base	289
a4Classif	245
a4Core	285
a4Preproc	327
a4Reporting	213
ABAEnrichment	68
ABarray	260
abseqR	198
ABSSeq	320
acde	266
ACE	218
aCGH	400
ACME	383
ADaCGH2	281
ADAM	199
ADAMgui	188
ADAPT	94
adaptest	25
adductomicsR	187
ADImpute	205
adSplit	289
adverSCarial	135
Aerith	6
AffiXcan	200
affxparser	2085
affy	8745
affycomp	286
AffyCompatible	123
affyContam	263
affycoretools	561
AffyExpress	88
affyILM	244
affyio	8915
affylmGUI	314
affyPara	115
affypdnn	130
affyPLM	1228
affyQCReport	87
AffyRNADegradation	216
AffyTiling	51
AGDEX	240
aggregateBioVar	209
Agi4x44PreProcess	42
agilp	198
AgiMicroRna	344
AHMassBank	145
AIMS	553
airpart	173
alabaster	148
alabaster.base	4425
alabaster.bumpy	147
alabaster.files	141
alabaster.mae	158
alabaster.matrix	4139
alabaster.ranges	4071
alabaster.sce	1307
alabaster.schemas	3996
alabaster.se	4037
alabaster.sfe	75
alabaster.spatial	152
alabaster.string	161
alabaster.vcf	147
ALDEx2	1573
alevinQC	202
AllelicImbalance	251
AlphaBeta	211
AlphaMissenseR	156
alpine	118
ALPS	21
AlpsNMR	234
alsace	67
altcdfenvs	293
AMARETTO	219
AMOUNTAIN	225
amplican	252
ampliQueso	54
AnalysisPageServer	45
anamiR	34
anansi	22
Anaquin	203
ANCOMBC	1716
AneuFinder	245
ANF	185
anglemania	25
animalcules	308
annaffy	449
AnnBuilder	16
anndataR	111
annmap	242
annotate	18934
AnnotationDbi	40621
AnnotationFilter	11815
AnnotationForge	2029
AnnotationFuncs	55
AnnotationHub	12450
AnnotationHubData	492
annotationTools	289
annotatr	762
anota	235
anota2seq	278
antiProfiles	190
AnVIL	701
AnVILAz	136
AnVILBase	521
AnVILBilling	163
AnVILGCP	153
AnVILPublish	159
AnVILWorkflow	143
APAlyzer	197
apComplex	270
apeglm	5111
APL	162
applera	6
appreci8R	204
aroma.light	1901
ArrayExpress	547
ArrayExpressHTS	67
arrayMagic	46
arrayMvout	269
arrayQCplot	8
arrayQuality	414
arrayQualityMetrics	647
ArrayTools	115
ArrayTV	83
ARRmNormalization	191
artMS	237
ASAFE	162
ASEB	179
ASGSCA	205
ASICS	291
asmn	6
ASpediaFI	46
ASpli	312
AssessORF	217
ASSET	263
ASSIGN	315
assorthead	13918
ASURAT	184
asuri	7
ATACCoGAPS	25
ATACseqQC	617
ATACseqTFEA	170
atena	179
AtlasRDF	19
atSNP	245
attract	291
AUCell	3293
autonomics	201
Autotuner	26
AWAggregator	33
AWFisher	192
awst	177
BaalChIP	251
BAC	76
bacon	339
BADER	216
BadRegionFinder	199
BAGS	199
ballgown	1349
bambu	432
bamsignals	1202
BANDITS	213
bandle	179
Banksy	424
banocc	181
barbieQ	100
barcodetrackR	167
basecallQC	227
BaseSpaceR	220
Basic4Cseq	245
BASiCS	360
BASiCStan	155
BasicSTARRseq	195
basilisk	3846
basilisk.utils	3470
batchCorr	46
batchelor	4337
BatchQC	294
BatchSVG	122
BayesKnockdown	189
BayesPeak	86
BayesSpace	519
bayNorm	231
baySeq	724
BBCAnalyzer	237
BCRANK	359
bcSeq	179
BDMMAcorrect	53
beachmat	17238
beachmat.hdf5	256
beachmat.tiledb	104
beadarray	777
beadarraySNP	110
BeadDataPackR	719
BeadExplorer	10
BEARscc	80
BEAT	270
BEclear	214
bedbaser	128
beer	174
benchdamic	127
BERT	127
betaHMM	136
betr	63
bettr	144
BG2	144
bgafun	69
BgeeCall	220
BgeeDB	235
BGmix	97
bgx	155
BHC	117
BicARE	278
BiFET	190
BiGGR	181
bigmelon	252
bigmemoryExtras	44
bigPint	77
bim	8
BindingSiteFinder	186
bioassayR	241
Biobase	55776
biobroom	373
biobtreeR	145
bioCancer	219
BioCartaImage	136
BiocBaseUtils	8570
BiocBook	168
BiocCaseStudies	112
BiocCheck	1750
biocDatasets	6
BiocDockerManager	32
BiocFHIR	160
BiocFileCache	27837
BiocGenerics	65414
Bioc.gff	31
biocGraph	307
BiocHail	88
BiocHubsShiny	177
BiocInstaller	147
BiocIO	20522
biocmake	711
BiocNeighbors	11930
BiocOncoTK	91
BioCor	252
BiocParallel	57252
BiocPkgTools	337
biocroxytest	124
BiocSet	537
BiocSingular	13792
BiocSklearn	241
BiocStyle	6521
biocthis	462
BiocVersion	67066
biocViews	4525
BiocWorkflowTools	256
biodb	253
biodbChebi	168
biodbExpasy	26
biodbHmdb	143
biodbKegg	51
biodbLipidmaps	30
biodbMirbase	22
biodbNcbi	142
biodbNci	127
biodbUniprot	129
bioDist	393
BioGA	120
biomaRt	22636
BioMedR	9
biomformat	6448
BioMM	52
BioMVCClass	231
biomvRCNS	235
BioNAR	181
BioNERO	323
BioNet	494
BioNetStat	65
BioQC	292
BioSeqClass	72
biosigner	224
Biostrings	51439
biosvd	60
BioTIP	196
biotmle	211
biovizBase	5761
BiRewire	303
birta	71
birte	49
biscuiteer	191
BiSeq	335
BitSeq	173
blacksheepr	196
blase	25
blima	231
BLMA	254
BloodGen3Module	192
bluster	6941
bnbc	205
bnem	164
BOBaFIT	175
borealis	147
BPRMeth	286
BRAIN	297
brainflowprobes	55
brainImageR	11
BrainSABER	45
BrainStars	57
branchpointer	212
breakpointR	220
BreastSubtypeR	115
brendaDb	191
BREW3R.r	135
BRGenomics	128
bridge	77
BridgeDbR	231
broadSeq	112
BrowserViz	259
BrowserVizDemo	11
BSgenome	13161
BSgenomeForge	281
bsseq	1595
BubbleTree	241
BufferedMatrix	191
BufferedMatrixMethods	217
bugsigdbr	631
BulkSignalR	160
BUMHMM	209
bumphunter	2629
BumpyMatrix	632
BUS	231
BUScorrect	200
BUSpaRse	351
BUSseq	219
CaDrA	139
CAEN	157
CAFE	269
CAGEfightR	309
cageminer	180
CAGEr	397
CALIB	84
CalibraCurve	24
calm	144
CAMERA	696
CAMTHC	19
CaMutQC	131
canceR	243
cancerclass	490
CancerInSilico	61
CancerMutationAnalysis	77
CancerSubtypes	137
CAnD	75
caOmicsV	116
cardelino	179
Cardinal	478
CardinalIO	268
CARDspa	137
CARNIVAL	308
casper	272
CATALYST	636
Category	1439
categoryCompare	265
CatsCradle	133
CausalR	212
cbaf	198
CBEA	51
cBioPortalData	578
CBN2Path	21
CBNplot	192
cbpManager	182
CCAFE	123
ccfindR	198
ccImpute	170
ccmap	191
CCPlotR	166
CCPROMISE	200
ccrepe	260
CDI	141
celaref	215
celda	1010
CellaRepertorium	54
CellBarcode	191
cellbaseR	246
CellBench	262
cellGrowth	70
cellHTS	86
cellHTS2	200
CelliD	336
cellity	231
CellMapper	193
cellmig	30
cellmigRation	171
CellMixS	307
CellNOptR	336
cellscape	158
CellScore	140
CellTrails	222
cellTree	145
cellxgenedp	184
CEMiTool	307
censcyt	157
Cepo	283
ceRNAnetsim	156
CeTF	219
CexoR	257
CFAssay	165
cfdnakit	161
cfDNAPro	213
cfTools	142
CGEN	198
CGHbase	604
CGHcall	582
cghMCR	305
CGHnormaliter	234
CGHregions	253
ChAMP	877
CHARGE	20
charm	91
ChemmineOB	466
ChemmineR	1017
CHETAH	232
chevreulPlot	110
chevreulProcess	118
chevreulShiny	86
ChIC	45
Chicago	259
chihaya	213
chimera	91
chimeraviz	279
ChIPanalyser	232
ChIPComp	210
chipenrich	295
ChIPexoQual	217
ChIPpeakAnno	1216
ChIPQC	530
ChIPseeker	2614
chipseq	858
ChIPseqR	298
ChIPSeqSpike	37
ChIPsim	278
ChIPXpress	208
chopsticks	222
chroGPS	95
Chromatograms	39
chromDraw	202
ChromHeatMap	241
ChromoViz	13
chromPlot	281
ChromSCape	175
chromstaR	197
chromswitch	71
chromVAR	1420
CHRONOS	219
cicero	479
cigarillo	2520
CIMICE	160
CINdex	218
circRNAprofiler	225
CircSeqAlignTk	142
cisPath	138
CiteFuse	203
ClassifyR	461
cleanUpdTSeq	288
CleanUpRNAseq	133
cleaver	404
clevRvis	152
clippda	219
clipper	273
cliProfiler	160
cliqueMS	205
Clomial	196
Clonality	92
clonotypeR	60
clst	227
clstutils	211
CluMSID	195
ClustAll	137
clustComp	198
clusterExperiment	495
ClusterFoldSimilarity	140
ClusterGVis	7
ClusterJudge	189
clusterProfiler	23789
clusterSeq	197
ClusterSignificance	207
clusterStab	234
clustifyr	322
ClustIRR	145
clustSIGNAL	115
CMA	311
cmapR	632
CNAnorm	214
CNEr	2597
cn.farms	248
cn.mops	431
CNORdt	194
CNORfeeder	238
CNORfuzzy	242
CNORode	239
CNPBayes	69
CNTools	302
CNVfilteR	161
CNVgears	45
cnvGSA	205
CNViz	133
CNVMetrics	163
CNVPanelizer	228
CNVRanger	224
CNVrd2	242
CNVtools	42
cobindR	75
CoCiteStats	203
COCOA	249
codelink	329
CODEX	328
coexnet	62
CoGAPS	379
cogena	291
cogeqc	187
Cogito	172
coGPS	217
COHCAP	104
cola	379
comapr	139
combi	174
coMET	183
coMethDMR	173
compartmap	68
COMPASS	288
compcodeR	343
compEpiTools	216
CompGO	72
ComplexHeatmap	18838
CompoundDb	408
ComPrAn	145
compSPOT	127
conclus	35
concordexR	149
condcomp	7
condiments	250
CONFESS	244
consensus	188
ConsensusClusterPlus	3092
consensusDE	196
consensusOV	226
consensusSeekeR	220
consICA	158
CONSTANd	165
contiBAIT	125
conumee	359
convert	313
copa	238
COPDSexualDimorphism	8
copynumber	252
CopyNumber450k	36
CopyNumberPlots	204
CopywriteR	134
Coralysis	73
coRdon	382
CoRegFlux	17
CoRegNet	120
CoreGx	483
Cormotif	239
CorMut	42
coRNAi	55
corral	210
CORREP	64
coseq	298
CoSIA	141
cosmiq	221
cosmo	30
cosmoGUI	19
cosmosR	238
COSNet	196
COTAN	204
CountClust	66
countsimQC	255
covEB	196
CoverageView	249
covRNA	187
CPSM	105
cpvSNP	241
cqn	460
CRImage	298
CRISPRball	110
crisprBase	240
crisprBowtie	217
crisprBwa	137
crisprDesign	232
crisprScore	245
CRISPRseek	339
crisprseekplus	57
crisprShiny	122
CrispRVariants	295
crisprVerse	172
crisprViz	201
crlmm	394
CrossICC	8
crossmeta	143
crumblr	105
crupR	101
CSAR	290
csaw	673
csdR	155
CSOA	29
CSSP	50
CSSQ	157
ctc	404
CTdata	147
CTDquerier	299
CTexploreR	134
ctgGEM	24
cTRAP	220
ctsGE	199
CTSV	150
cummeRbund	437
CuratedAtlasQueryR	160
customCMPdb	175
customProDB	227
CVE	32
cyanoFilter	168
cycle	239
cydar	269
cypress	149
CytoDx	180
cytofast	27
cytofkit	53
CyTOFpower	95
cytofQC	128
CytoGLMM	168
cytoKernel	168
cytolib	2745
cytomapper	491
CytoMDS	134
cytoMEM	189
CytoML	648
CytoPipeline	168
CytoPipelineGUI	132
CytoTree	40
cytoviewer	181
dada2	2980
dagLogo	307
daMA	226
DAMEfinder	225
damidBind	3
DaMiRseq	239
Damsel	140
dandelionR	118
DAPAR	288
dar	127
DART	241
DASC	3
DASiR	33
dasper	43
DAVIDQuery	29
DBChIP	88
dcanr	329
DCATS	151
dce	116
dcGSA	177
DChIPRep	88
ddCt	288
ddgraph	52
ddPCRclust	214
dearseq	239
debCAM	184
debrowser	295
DECIPHER	3262
deco	55
DEComplexDisease	62
decompTumor2Sig	205
DeconRNASeq	398
decontam	1803
decontX	476
DeconvoBuddies	107
deconvR	193
decoupleR	1862
DEDS	103
DeeDeeExperiment	35
DeepBlueR	94
DeepPINCS	166
deepSNV	350
DeepTarget	128
DEFormats	415
DegCre	154
DegNorm	195
DEGraph	183
DEGreport	736
DEGseq	373
DelayedArray	47007
DelayedDataFrame	193
DelayedMatrixStats	16965
DelayedRandomArray	166
DelayedTensor	167
DELocal	146
deltaCaptureC	160
deltaGseg	192
DeMAND	161
DeMixT	226
demuxmix	245
demuxSNP	155
densvis	769
DEP	908
DepecheR	212
DepInfeR	162
DeProViR	19
DEqMS	440
derfinder	731
derfinderHelper	661
derfinderPlot	273
DEScan2	227
DESeq	239
DESeq2	27098
DEsingle	375
DESpace	184
destiny	991
DEsubs	234
DEWSeq	204
DExMA	179
DEXSeq	1834
dexus	73
DFP	222
DFplyr	130
DIAlignR	64
DiffBind	1439
diffcoexp	226
diffcyt	502
DifferentialRegulation	165
diffGeneAnalysis	190
diffHic	322
DiffLogo	225
diffloop	183
diffuStats	232
diffUTR	166
diggit	195
Dino	181
dinoR	139
Director	91
dir.expiry	4624
DirichletMultinomial	4698
discordant	238
DiscoRhythm	221
distinct	264
dittoSeq	1452
divergence	172
dks	171
DMCFB	184
DMCHMM	189
dmGsea	69
DMRcaller	302
DMRcate	1197
DMRforPairs	87
DMRScan	229
dmrseq	352
DNABarcodeCompatibility	148
DNABarcodes	284
DNAcopy	4293
DNAcycP2	109
DNAfusion	166
DNaseR	12
DNAshapeR	345
DNEA	63
domainsignatures	45
dominatR	8
DominoEffect	171
dominoSignal	137
doppelgangR	224
DOQTL	84
Doscheda	209
DOSE	23566
doseR	215
DOtools	14
doubletrouble	191
dpeak	48
drawProteins	297
dreamlet	246
DRIMSeq	514
DriverNet	210
DropletUtils	2647
drugTargetInteractions	175
DrugVsDisease	221
dSimer	51
DspikeIn	23
DSS	835
dStruct	145
DTA	200
dualKS	101
Dune	179
DupChecker	31
DuplexDiscovereR	130
dupRadar	256
dyebias	263
DynDoc	1648
easier	225
EasyCellType	179
easylift	144
EasyqpcR	74
easyreporting	173
easyRNASeq	300
EBarrays	333
EBcoexpress	220
EBImage	3231
EBSEA	184
EBSeq	599
EBSeqHMM	107
ecolitk	270
EDASeq	1798
edd	23
EDDA	67
edge	283
edgeR	26242
EDIRquery	148
eds	329
eegc	84
EGAD	279
EGSEA	332
eiR	212
eisa	142
eisaR	255
ELBOW	74
ELMER	434
ELViS	111
EMDomics	260
EmpiricalBrownsMethod	227
ENCODExplorer	58
EnhancedVolcano	6745
enhancerHomologSearch	169
EnMCB	167
ENmix	482
EnrichDO	142
EnrichedHeatmap	1026
EnrichmentBrowser	625
enrichplot	23895
enrichTF	62
enrichViewNet	155
ensembldb	10064
ensemblVEP	144
ENVISIONQuery	40
epialleleR	197
EpiCompare	173
epidecodeR	167
EpiDISH	864
epigenomix	234
epigraHMM	237
epihet	33
EpiMix	164
epimutacions	168
epiNEM	227
EpipwR	135
epiregulon	133
epiregulon.extra	142
epistack	179
epistasisGA	153
EpiTxDb	225
epivizr	314
epivizrChart	202
epivizrData	221
epivizrServer	207
epivizrStandalone	235
erccdashboard	239
erma	218
ERSSA	196
esATAC	203
escape	536
escheR	216
esetVis	231
eudysbiome	254
evaluomeR	188
EventPointer	254
EWCE	305
ExCluster	164
ExiMiR	256
exomeCopy	320
exomePeak	89
exomePeak2	117
exonmap	19
ExperimentHub	8784
ExperimentHubData	392
ExperimentSubset	174
explorase	51
ExploreModelMatrix	373
ExpressionAtlas	236
ExpressionView	80
exprExternal	11
externalVector	16
extraChIPs	201
fabia	312
facopy	99
factDesign	245
factR	136
faers	182
FamAgg	244
famat	196
farms	129
fastLiquidAssociation	195
FastqCleaner	229
fastreeR	185
fastseg	1068
fbat	21
FCBF	82
fCCAC	235
fCI	211
fcoex	80
fcScan	227
fdrame	186
FEAST	287
FeatSeekR	136
fedup	170
FELLA	296
FEM	72
fenr	153
ffpe	240
fgga	168
FGNet	252
fgsea	26592
FilterFFPE	200
findIPs	132
FindIT2	198
FindMyFriends	58
FinfoMDS	28
FISHalyseR	169
fishpond	502
FitHiC	199
flagme	193
FLAMES	185
flipflop	56
flowAI	634
flowBeads	237
flowBin	199
flowcatchR	258
flowCHIC	215
flowCL	61
flowClean	343
flowClust	1026
flowCore	2852
flowCut	238
flowCyBar	159
flowDensity	448
flowFit	50
flowFlowJo	40
flowFP	365
flowGate	170
flowGraph	170
flowMap	137
flowMatch	234
flowMeans	370
flowMerge	268
flowPeaks	304
flowPhyto	35
flowPloidy	194
flowPlots	173
flowQ	74
flowQB	71
FlowRepositoryR	58
FlowSOM	1207
flowSpecs	208
flowSpy	21
flowStats	747
flowTime	232
flowTrans	260
flowType	97
flowUtils	138
flowViz	1175
flowVS	278
flowWorkspace	1446
fmcsR	422
fmrs	189
fobitools	173
focalCall	46
FoldGO	113
FourCSeq	104
FRASER	274
frenchFISH	134
FRGEpistasis	159
frma	330
frmaTools	262
FScanR	25
FunChIP	116
FunciSNP	95
funOmics	129
funtooNorm	214
FuseSOM	165
G4SNVHunter	138
GA4GHclient	190
GA4GHshiny	179
gaga	274
gage	971
gaggle	104
gaia	72
GAPGOM	38
GAprediction	154
garfield	165
GARS	178
GateFinder	175
gatom	180
gaucho	41
GBScleanR	161
gcapc	263
gcatest	185
gCMAP	78
gCMAPWeb	80
GCPtools	84
gCrisprTools	250
gcrma	1359
GCSConnection	21
GCSFilesystem	17
GCSscore	58
GDCRNATools	337
gDNAx	141
gDR	127
gDRcore	145
gDRimport	147
gDRstyle	140
gDRutils	142
GDSArray	219
gdsfmt	2495
GeDi	135
geecc	57
GEM	185
gemini	160
gemma.R	198
genArise	203
genbankr	207
gene2pathway	16
GeneAccord	50
GeneAnswers	128
geneAttribution	224
GeneBreak	231
geneClassifiers	202
GENE.E	24
GeneExpressionSignature	255
genefilter	12989
genefu	548
GeneGA	160
GeneGeneInteR	143
GeneGroupAnalysis	13
GeneMeta	354
GeneNetworkBuilder	266
GeneOverlap	966
geneplast	254
geneplotter	4108
GeneR	27
geneRecommender	209
GeneRegionScan	251
GeneRfold	8
geneRxCluster	215
GeneSelectMMD	250
GeneSelector	64
GENESIS	632
GeneSpring	26
GeneStructureTools	226
geNetClassifier	257
GeneticsBase	22
GeneticsDesign	46
GeneticsPed	239
GeneTonic	302
GeneTraffic	15
GeneTS	11
geneXtendeR	231
GENIE3	1692
genoCN	130
GenoGAM	79
genomation	989
GenomAutomorphism	170
GenomeBase	4
GenomeGraphs	85
GenomeInfoDb	57840
genomeIntervals	315
genomes	221
GenomicAlignments	24113
GenomicDataCommons	1056
GenomicDistributions	231
GenomicFeatures	18190
GenomicFiles	1109
genomicInstability	182
GenomicInteractionNodes	157
GenomicInteractions	541
GenomicOZone	172
GenomicPlot	171
GenomicRanges	49227
GenomicScores	849
GenomicSuperSignature	205
GenomicTuples	223
Genominator	82
genoset	101
genotypeeval	66
GenoView	18
genphen	97
GenProSeq	152
GenRank	23
GenVisR	429
GeoDiff	161
GEOexplorer	167
GEOfastq	170
GEOmetadb	444
geomeTriD	149
GeomxTools	525
GEOquery	11556
GEOsearch	23
GEOsubmission	219
GeoTcgaData	185
gep2pep	186
gespeR	124
getDEE2	181
geva	168
GEWIST	168
geyser	122
gff3Plotter	6
gg4way	151
GGBase	121
ggbio	2555
ggcyto	1073
ggkegg	557
ggmanh	227
ggmsa	721
GGPA	171
ggsc	195
ggseqalign	110
ggspavis	383
GGtools	190
ggtree	26986
ggtreeDendro	161
ggtreeExtra	1704
ggtreeSpace	127
GIGSEA	185
ginmappeR	124
gINTomics	135
girafe	274
GISPA	88
GLAD	407
GladiaTOX	184
Glimma	1123
glmGamPoi	6114
glmSparseNet	247
GlobalAncova	1240
globalSeq	197
globaltest	1870
GloScope	144
gmapR	263
GmicR	182
gmoviz	187
GMRP	227
GNET2	178
GNOSIS	128
goatea	5
goCluster	8
GOexpress	315
GOfuncR	351
GOFunction	90
GoogleGenomics	47
GOpro	248
goProfiles	340
GOSemSim	21773
goseq	1645
GOSim	130
goSorensen	155
goSTAG	264
GOstats	1422
GOsummaries	110
GOTHiC	353
goTools	245
GPA	156
gpart	83
gpls	243
gprege	71
gpuMagic	150
gQTLBase	58
gQTLstats	90
GrafGen	136
gramm4R	17
GRaNIE	176
granulator	203
graper	176
graph	22002
GraphAlignment	185
GraphAT	254
graphite	4347
GraphPAC	114
GRENITS	185
GreyListChIP	1292
GRmetrics	253
groHMM	243
GRridge	91
GSALightning	162
GSAR	267
GSCA	218
gscreend	187
GSEABase	10105
GSEABenchmarkeR	230
GSEAlm	301
GSEAmining	202
gsean	209
GSgalgoR	182
GSReg	207
GSRI	237
GSVA	8480
gtrellis	310
GUIDEseq	279
Guitar	338
gVenn	32
Gviz	3453
GWAS.BAYES	171
gwascat	650
GWASTools	847
gwasurvivr	201
GWENA	227
gypsum	3911
h5mread	7655
h5vc	269
hapFabia	241
Harman	338
HarmonizR	183
Harshlight	198
hca	148
HCABrowser	24
HCAExplorer	14
HCAMatrixBrowser	7
HCsnip	58
HDF5Array	15838
HDTD	168
hdxmsqc	126
heatmaps	451
Heatplus	449
HelloRanges	316
HELP	234
HEM	228
hermes	256
HERON	142
Herper	195
hexbin	62
HGC	169
hiAnnotator	249
HIBAG	292
HicAggR	134
HiCaptuRe	33
HiCBricks	268
HiCcompare	455
HiCDCPlus	198
HiCDOC	173
HiCExperiment	226
HiContacts	222
HiCool	118
HiCParser	98
HiCPotts	38
hicrep	18
hicVennDiagram	154
hierGWAS	205
hierinf	143
HilbertCurve	254
HilbertVis	303
HilbertVisGUI	123
HiLDA	201
hipathia	254
HIPPO	168
hiReadsProcessor	197
HIREewas	206
HiTC	362
hmdbQuery	203
HMMcopy	501
HoloFoodR	127
hoodscanR	201
hopach	525
HPAanalyze	301
hpar	415
HPAStainR	22
HPiP	160
HTqPCR	341
HTSanalyzeR	90
HTSeqGenie	46
htSeqTools	99
HTSFilter	422
HuBMAPR	125
HubPub	377
HumanTranscriptomeCompendium	70
hummingbird	160
HVP	55
HybridExpress	138
HybridMTest	241
hypeR	227
hyperdraw	280
hypergraph	316
iASeq	166
iasva	216
iBBiG	238
Ibex	13
ibh	213
iBMQ	155
iCARE	210
Icens	431
icetea	192
iCheck	221
iChip	238
iClusterPlus	499
iCNV	173
iCOBRA	413
ideal	277
IdeoViz	251
idiogram	267
IdMappingAnalysis	66
IdMappingRetrieval	45
idpr	185
idr2d	236
IFAA	146
iFlow	17
igblastr	61
iGC	205
IgGeneUsage	184
igvR	242
igvShiny	170
IHW	1028
illuminaio	2916
ILoReg	198
imageHTS	123
imageTCGA	93
IMAS	167
imcRtools	348
Imetagene	63
IMMAN	179
immApex	222
immReferent	6
ImmuneSpaceR	105
immunoClust	200
immunogenViewer	101
immunotation	192
iModMix	25
IMPCdata	159
ImpulseDE	18
ImpulseDE2	41
impute	11834
INDEED	150
iNETgrate	125
infercnv	1697
infinityFlow	172
Informeasure	147
InPAS	274
INPower	226
inSilicoDb	61
inSilicoMerging	30
INSPEcT	294
INTACT	142
InTAD	199
intansv	246
interacCircos	146
InteractionSet	1839
InteractiveComplexHeatmap	596
interactiveDisplay	348
interactiveDisplayBase	3129
InterCellar	204
IntEREst	219
InterMineR	113
IntOMICS	19
IntramiRExploreR	194
inveRsion	48
IONiseR	346
iontree	32
iPAC	138
iPath	136
ipdDb	185
IPO	268
IPPD	61
IRanges	60121
IRISFGM	39
IrisSpatialFeatures	9
ISAnalytics	178
iscream	24
iSEE	641
iSEEde	159
iSEEfier	141
iSEEhex	171
iSEEhub	169
iSEEindex	147
iSEEpathways	154
iSEEtree	142
iSEEu	238
iSeq	190
ISLET	159
islify	97
iSNetwork	7
isobar	304
IsoBayes	149
IsoCorrectoR	213
IsoCorrectoRGUI	144
IsoformSwitchAnalyzeR	502
IsoGeneGUI	127
ISoLDE	164
isomiRs	235
iSPlot	12
ITALICS	246
iterativeBMA	221
iterativeBMAsurv	182
iterClust	47
iteremoval	40
IVAS	226
ivygapSE	204
IWTomics	236
jazzPanda	107
jmosaics	33
joda	68
JunctionSeq	53
karyoploteR	1058
katdetectr	160
KBoost	139
KCsmart	256
kebabs	310
KEGGgraph	6139
KEGGlincs	219
keggorth	11
keggorthology	242
KEGGprofile	74
KEGGREST	40583
KEGGSOAP	30
kimod	29
KinSwingR	198
kissDE	176
kmcut	125
KnowSeq	224
knowYourCG	147
koinar	132
LACE	208
LACHESIS	10
lapmix	123
LBE	274
ldblock	230
LEA	867
LedPred	171
lefser	630
lemur	173
les	239
levi	163
lfa	370
Lheuristic	86
limma	38454
limmaGUI	253
limpa	130
limpca	137
LimROTS	107
LINC	37
LineagePulse	55
lineagespot	156
LinkHD	190
linkSet	40
Linnorm	349
LinTInd	193
lionessR	217
lipidr	282
LipidTrend	58
LiquidAssociation	212
lisaClust	266
lmdme	223
LMGene	103
LOBSTAHS	195
loci2path	175
logicFS	258
logitT	92
Logolas	39
lol	37
LOLA	407
looking4clusters	25
LoomExperiment	678
LowMACA	88
LPE	244
LPEadj	89
lpNet	191
lpsymphony	1202
LRBaseDbi	171
LRcell	170
lumi	1324
lute	116
LVSmiRNA	74
LymphoSeq	228
M3C	621
M3D	75
M3Drop	582
m6Aboost	149
maanova	127
Maaslin2	1117
maaslin3	258
Macarron	132
macat	144
maCorrPlot	206
MACPET	68
MACSQuantifyR	151
MACSr	186
maDB	33
made4	432
MADSEQ	167
maftools	2839
MAGAR	167
MAGeCKFlute	295
magpie	162
magrene	161
MAI	158
maigesPack	167
MAIT	209
makecdfenv	381
makePlatformDesign	13
MANOR	233
manta	106
MantelCorr	185
MAPFX	132
mAPKL	82
maPredictDSC	198
mapscape	168
mariner	153
markeR	25
marr	196
marray	2031
martini	194
maser	250
maSigPro	553
maskBAD	229
MassArray	182
massiR	266
MassSpecWavelet	2016
MAST	2327
mastR	180
matchBox	183
matchprobes	21
MatrixGenerics	46922
MatrixQCvis	185
MatrixRider	224
matter	429
MaxContrastProjection	33
MBAmethyl	165
MBASED	276
MBCB	202
MBECS	165
mbkmeans	555
mbOmic	18
mBPCR	235
MBQN	204
mbQTL	132
MBttest	214
mcaGUI	65
MCbiclust	234
MCRestimate	62
mCSEA	243
mdgsa	70
mdp	235
mdqc	242
MDTS	183
MEAL	267
MeasurementError.cor	182
MEAT	199
MEB	191
MEDIPS	355
MEDME	217
megadepth	237
MEIGOR	231
Melissa	174
memes	347
MergeMaid	96
Mergeomics	222
MeSHDbi	342
meshes	309
meshr	294
MeSHSim	18
MesKit	232
messina	234
metaArray	83
Metab	85
metabCombiner	229
metabinR	150
MetaboAnnotation	299
MetaboCoreUtils	2693
MetaboDynamics	124
metabolomicsWorkbenchR	225
metabomxtr	205
MetaboSignal	274
metaCCA	178
MetaCyto	201
MetaDICT	25
metagene	162
metagene2	232
metagenomeFeatures	54
metagenomeSeq	1990
metahdep	200
metaMS	273
MetaNeighbor	278
MetaPhOR	161
metapod	5706
metapone	171
metaSeq	217
metaseqR	102
metaseqR2	219
metavizr	75
MetaVolcanoR	81
metaX	16
MetCirc	225
MethCP	55
methimpute	221
methInheritSim	187
methodical	119
MethPed	213
MethReg	194
methrix	266
MethTargetedNGS	184
methVisual	86
methyAnalysis	89
MethylAid	251
methylCC	217
methylclock	330
methylGSA	255
methyLImp2	146
methylInheritance	218
methylKit	1021
MethylMix	268
methylMnM	232
methylPipe	281
methylscaper	174
MethylSeekR	382
methylSig	248
methylumi	1644
methyvim	28
MetID	191
MetMashR	96
MetNet	223
mfa	240
Mfuzz	1492
MGFM	219
MGFR	205
MGnifyR	144
mgsa	251
mia	1598
miaDash	101
miaSim	188
miaTime	38
miaViz	414
MiChip	228
microbiome	2274
microbiomeDASim	167
microbiomeExplorer	177
microbiomeMarker	450
MicrobiomeProfiler	208
MicrobiotaProcess	579
microRNA	571
microSTASIS	129
MICSQTL	144
midasHLA	170
MIGSA	91
miloR	858
mimager	198
MIMOSA	104
mina	141
MineICA	330
minet	827
minfi	2439
MinimumDistance	252
MiPP	215
miQC	262
MIRA	234
MiRaGE	282
miRBaseConverter	356
miRcomp	224
mirIntegrator	228
MIRit	142
miRLAB	239
miRmine	121
miRNAmeConverter	183
miRNApath	185
miRNAtap	284
miRSM	199
miRsponge	11
miRspongeR	192
Mirsynergy	39
mirTarRnaSeq	186
missMethyl	1267
missRows	178
mist	91
mistyR	272
mitch	264
mitoClone2	169
mitology	123
mitoODE	37
mixOmics	3714
MLInterfaces	571
mlm4omics	9
MLP	353
MLSeq	300
MMAPPR2	28
MMDiff	64
MMDiff2	240
mmgmos	6
mmnet	36
MmPalateMiRNA	86
MMUPHin	297
mnem	234
moanin	172
mobileRNA	136
MobilityTransformR	19
MODA	191
ModCon	152
Modstrings	249
MOFA	26
MOFA2	964
MOGAMUN	183
mogsa	385
MoleculeExperiment	170
MOMA	190
monaLisa	277
monocle	3632
Moonlight2R	153
MoonlightR	237
MoPS	49
mosaics	375
mosbi	178
MOSClip	129
mosdef	367
MOSim	192
Motif2Site	163
motifbreakR	404
motifcounter	194
MotifDb	967
motifmatchr	1617
MotifPeeker	120
motifRG	95
motifStack	1026
motifTestR	150
MotIV	102
MouseFM	161
MPAC	118
MPFE	157
mpra	248
MPRAnalyze	197
MQmetrics	31
mQTL.NMR	57
msa	2474
MSA2dist	198
MsBackendMassbank	188
MsBackendMetaboLights	153
MsBackendMgf	638
MsBackendMsp	404
MsBackendRawFileReader	201
MsBackendSql	171
MsCoreUtils	3967
MsDataHub	213
MSEADbi	5
MsExperiment	1493
MsFeatures	1648
msgbsR	208
MSGFgui	81
MSGFplus	61
msImpute	211
mslp	120
msmsEDA	369
msmsTests	389
MSnbase	3790
MSnID	409
mspms	129
MSPrep	142
msPurity	286
msqrob2	283
MsQuality	163
MSstats	776
MSstatsBig	154
MSstatsBioNet	119
MSstatsConvert	674
MSstatsLiP	230
MSstatsLOBD	144
MSstatsPTM	358
MSstatsQC	208
MSstatsQCgui	150
MSstatsResponse	22
MSstatsSampleSize	55
MSstatsShiny	206
MSstatsTMT	455
MSstatsTMTPTM	10
MTseeker	12
MuData	182
Mulcom	241
MultiAssayExperiment	6867
MultiBaC	191
multiClust	238
multicrispr	184
MultiDataSet	1589
multiGSEA	265
multiHiCcompare	262
MultiMed	205
multiMiR	631
MultimodalExperiment	152
multiOmicsViz	83
MultiRNAflow	152
multiscan	222
multiSight	34
multistateQTL	129
multiWGCNA	175
multtest	12280
mumosa	191
MungeSumstats	779
muscat	737
muscle	534
musicatk	191
MutationalPatterns	512
mutscan	29
MVCClass	233
mvGST	43
MWASTools	274
mygene	534
myvariant	280
mzID	3508
mzR	3941
NADfinder	225
NanoMethViz	217
NanoStringDiff	235
NanoStringNCTools	517
NanoStringQCPro	89
nanotatoR	45
NanoTube	222
NarrowPeaks	66
NBAMSeq	170
NBSplice	48
ncdfFlow	1368
ncGTW	165
NCIgraph	165
ncRNAtools	171
ndexr	188
neaGUI	27
nearBynding	192
Nebulosa	1362
NeighborNet	49
nem	138
nempi	171
NetActivity	143
netbenchmark	34
netbiov	103
netboost	172
netboxr	38
netDx	55
nethet	205
netOmics	58
NetPathMiner	223
netprioR	162
netReg	27
netresponse	234
NetSAM	215
netSmooth	220
networkBMA	75
netZooR	95
NeuCA	69
NewWave	205
NGScopy	48
ngsReports	231
nipalsMCIA	162
nnNorm	242
nnSVG	239
NOISeq	695
nondetects	196
NoRCE	191
normalize450K	190
NormalyzerDE	367
NormqPCR	316
normr	294
notame	37
notameStats	20
notameViz	33
NPARC	198
npGSEA	230
NTW	173
nucleoSim	207
nucleR	306
nuCpos	187
nudge	60
nullranges	302
NuPoP	239
NxtIRFcore	47
occugene	178
OCplus	233
octad	176
ODER	26
odseq	196
OGRE	156
OGSA	51
oligo	3027
oligoClasses	2026
OLIN	283
OLINgui	243
omada	131
OmaDB	267
omicade4	313
OmicCircos	336
omicplotR	183
omicRexposome	206
omicsGMF	23
OmicsLonDA	54
OmicsMarkeR	51
OmicsMLRepoR	97
OMICsPCA	232
omicsPrint	212
omicsViewer	181
Omixer	179
OmnipathR	1156
ompBAM	193
omXplore	170
Onassis	48
oncomix	192
oncoscanR	169
OncoScore	196
OncoSimulR	249
oneChannelGUI	89
oneSENSE	53
onlineFDR	144
ontoCAT	50
ontoProc	302
ontoTools	36
openCyto	886
openPrimeR	236
openPrimeRui	65
OpenStats	140
OperaMate	24
oposSOM	277
oppar	225
oppti	102
optimalFlow	171
OPWeight	200
OrderedList	239
ORFhunteR	184
ORFik	395
OrganismDbi	3048
Organism.dplyr	434
orthogene	648
orthos	155
OSAT	217
Oscope	272
OSTA.data	148
OTUbase	256
OutlierD	82
OUTRIDER	355
OutSplice	154
OVESEG	173
PAA	248
packFinder	198
padma	193
PADOG	369
pageRank	165
PAIRADISE	216
paircompviz	207
pairedGSEA	131
pairkat	164
pairseqsim	3
pamr	35
pandaR	261
panelcn.mops	255
PAnnBuilder	54
PanomiR	164
panp	289
PANR	212
PanViz	78
PanVizGenerator	60
PAPi	87
pareg	35
parglms	221
parody	252
partCNV	143
PAST	214
Path2PPI	222
pathifier	224
pathlinkR	164
pathMED	74
PathNet	223
PathoStat	212
pathprint	33
pathRender	239
pathVar	95
pathview	5189
pathwayPCA	235
PathwaySplice	65
PatientGeneSets	18
paxtoolsr	135
Pbase	64
pbcmc	36
pcaExplorer	457
pcaGoPromoter	52
pcaMethods	5791
PCAN	237
PCAtools	1302
pcot2	115
PCpheno	127
pcxn	54
PDATK	168
pdInfoBuilder	297
pdmclass	84
PeacoQC	380
peakCombiner	25
peakPantheR	183
PECA	265
peco	188
Pedixplorer	153
pengls	150
PepSetTest	121
PepsNMR	254
pepStat	253
pepXMLTab	212
PERFect	58
periodicDNA	216
perturbatr	31
pfamAnalyzeR	340
PFP	36
PGA	126
pgca	149
PGSEA	177
pgUtils	18
pgxRpi	133
phantasus	219
phantasusLite	147
PharmacoGx	510
phemd	81
phenoDist	56
PhenoGeneRanker	145
phenomis	157
phenopath	309
phenoTest	320
PhenStat	208
philr	395
PhIPData	187
phosphonormalizer	160
PhosR	299
PhyloProfile	233
phyloseq	6506
Pi	94
piano	629
PICB	113
pickgene	186
PICS	224
Pigengene	228
PING	210
pint	41
pipeComp	217
pipeFrame	237
PIPETS	132
Pirat	107
PIUMA	116
pkgDepTools	121
planet	307
planttfhunter	146
plasmut	135
plateCore	107
plethy	107
plgem	326
plier	303
PloGO2	62
plotgardener	348
plotGrouper	174
PLPE	216
plrs	101
PLSDAbatch	142
plw	76
plyinteractions	147
plyranges	1399
plyxp	148
pmm	144
pmp	266
PMScanR	30
PoDCall	139
podkat	284
poem	106
pogos	187
polyester	205
Polyfit	50
PolySTest	124
Polytect	129
POMA	264
POST	31
PoTRA	27
PowerExplorer	23
powerTCR	420
POWSC	167
ppcseq	171
PPInfer	251
ppiStats	139
pqsfinder	352
prada	79
pram	184
prebs	249
preciseTAD	241
PrecisionTrialDrawer	34
PREDA	273
predictionet	61
preprocessCore	15761
primirTSS	182
PrInCE	195
Prize	24
proActiv	227
proBAMr	211
proBatch	85
PROcess	238
procoil	292
ProCoNA	53
proDA	345
proFIA	80
profileplyr	378
profileScoreDist	177
progeny	786
projectR	215
pRoloc	558
pRolocGUI	271
PROMISE	239
PRONE	150
PROPER	281
PROPS	195
Prostar	229
prot2D	60
proteasy	36
proteinProfiles	156
ProteoDisco	187
ProteomicsAnnotationHubData	52
ProteoMM	221
proteoQC	54
protGear	170
ProtGenerics	12113
PSEA	106
psichomics	238
PSICQUIC	86
PSMatch	2887
psygenet2r	111
ptairMS	216
PubScore	34
pulsedSilac	30
puma	292
PureCN	374
pvac	230
pvca	487
Pviz	238
pwalign	8033
PWMEnrich	461
pwOmics	181
pwrEWAS	42
qckitfastq	133
qcmetrics	274
QDNAseq	595
QFeatures	3330
qmtools	173
qpcrNorm	230
qpgraph	394
qPLEXanalyzer	199
qrqc	126
QRscore	114
qsea	226
qsmooth	242
QSutils	242
qsvaR	157
QTLExperiment	150
Qtlizer	194
QUALIFIER	89
quantiseqr	835
quantro	383
quantsmooth	787
QuartPAC	98
QuasR	605
QuaternaryProd	189
QUBIC	257
qusage	521
qvalue	22388
R3CPET	220
r3Cseq	283
R453Plus1Toolbox	248
R4RNA	834
RadioGx	194
raer	146
RaggedExperiment	927
RAIDS	140
rain	278
rama	93
RamiGO	37
ramr	173
ramwas	284
RandomWalkRestartMH	84
randPack	217
randRotation	152
RankProd	469
RAREsim	147
RareVariantVis	239
Rariant	113
Rarr	308
rawDiag	132
rawrr	286
RbcBook1	424
Rbec	135
RBGL	9482
RBioFormats	375
RBioinf	203
rBiopaxParser	421
rBLAST	284
RBM	204
Rbowtie	580
Rbowtie2	468
RbowtieCuda	62
rbsurv	219
Rbwa	139
Rcade	185
RCAS	265
RCASPAR	162
rcellminer	267
rCGH	387
Rchemcpp	83
RchyOptimyx	57
RcisTarget	1536
RCM	223
Rcollectl	85
Rcpi	307
RCSL	163
Rcwl	222
RcwlPipelines	159
RCX	169
RCy3	1017
RCyjs	252
RCytoscape	45
RDAVIDWebService	107
Rdbi	22
RdbiPgSQL	11
rDGIdb	88
Rdisop	705
RDRToolbox	281
ReactomeContentService4R	58
ReactomeGraph4R	28
ReactomeGSA	340
ReactomePA	4132
readat	45
ReadqPCR	317
reb	116
REBET	176
rebook	231
receptLoss	130
reconsi	152
recount	561
recount3	582
recountmethylation	195
recoup	307
RedeR	423
RedisParam	144
REDseq	239
ReducedExperiment	137
RefNet	62
RefPlus	178
RegEnrich	275
regionalpcs	116
RegionalST	128
regioneR	2136
regioneReloaded	160
regionReport	336
regsplice	199
regutools	185
REMP	220
Repitools	432
ReportingTools	765
reposTools	3
RepViz	159
ReQON	135
ResidualMatrix	4232
RESOLVE	143
Resourcerer	38
restfulSE	106
retrofit	146
ReUseData	131
rexposome	260
rfaRm	171
Rfastp	231
RFLOMICS	101
rflowcyt	47
rfPred	259
rGADEM	442
RGalaxy	69
rGenomeTracks	156
Rgin	30
RGMQL	50
RgnTX	152
rgoslin	238
RGraph2js	221
Rgraphviz	9888
rGREAT	893
RGSEA	236
rgsepd	232
rhdf5	24691
rhdf5client	256
rhdf5filters	23609
Rhdf5lib	25298
rhinotypeR	123
Rhisat2	274
Rhtslib	25322
rHVDM	96
RiboCrypt	175
RiboDiPA	192
RiboProfiling	235
ribor	187
riboSeqR	258
ribosomeProfilingQC	208
rifi	139
rifiComparative	137
Rigraphlib	741
rigvf	101
RImmPort	165
Ringo	301
Rintact	19
RIPAT	48
RIPSeeker	96
Risa	161
RITAN	163
RIVER	231
RJMCMCNucleosomes	196
RLassoCox	154
RLMM	185
RLSeq	42
RMAGEML	14
Rmagpie	207
RMAPPER	20
RMassBank	344
rMAT	61
rmelting	184
RmiR	64
Rmmquant	191
rmspc	170
RNAAgeCalc	232
RNAdecay	142
rnaEditr	175
RNAinteract	90
RNAither	105
RNAmodR	188
RNAmodR.AlkAnilineSeq	170
RNAmodR.ML	200
RNAmodR.RiboMethSeq	167
RNAprobR	53
RNAsense	181
rnaseqcomp	236
RNAseqCovarImpute	133
rnaSeqMap	136
RNASeqPower	339
RNASeqR	36
RnaSeqSampleSize	269
RnBeads	527
Rnits	214
roar	252
roastgsa	145
ROC	1270
ROCpAI	157
RolDE	166
Roleswitch	57
Rolexa	53
rols	560
ROntoTools	358
ropls	1629
ROSeq	203
ROTS	426
RPA	254
rprimer	176
RProtoBufLib	2600
RpsiXML	167
rpx	555
Rqc	464
rqt	163
rqubic	220
rRDP	248
Rredland	17
RRHO	241
rrvgo	711
Rsamtools	27017
rsbml	269
rScudo	194
rsemmed	155
RSeqAn	193
rSFFreader	61
RSNPper	13
Rsubread	2317
RSVSim	262
rSWeeP	189
rTANDEM	78
RTCA	202
RTCGA	573
RTCGAToolbox	632
RTN	357
RTNduals	198
RTNsurvival	194
RTools4TB	5
RTopper	279
Rtpca	191
rtracklayer	21784
Rtreemix	184
rTRM	305
rTRMui	217
RUCova	113
runibic	164
Ruuid	21
RUVcorr	200
RUVnormalize	258
RUVSeq	1112
Rvisdiff	139
RVS	181
RWebServices	18
rWikiPathways	535
S4Arrays	46048
S4Vectors	60326
safe	685
SAGElyzer	10
sagenhaft	214
SAGx	89
SAIGEgds	207
samExploreR	23
sampleClassifier	166
SamSPECTRAL	289
sangeranalyseR	341
sangerseqR	763
SanityR	37
SANTA	217
sapFinder	60
saps	15
SARC	136
sarks	165
saseR	124
satuRn	435
savR	44
SBGNview	251
sbgr	5
SBMLR	215
SC3	567
scafari	42
Scale4C	211
ScaledMatrix	13406
scAlign	76
scanMiR	191
scanMiRApp	158
scAnnotatR	195
SCAN.UPC	315
SCANVIS	202
SCArray	193
SCArray.sat	136
SCATE	33
scater	7901
scatterHatch	142
scBFA	185
SCBN	167
scBubbletree	167
scCB2	168
scClassifR	20
scClassify	253
sccomp	220
scDataviz	195
scDblFinder	2541
scDD	361
scDDboost	149
scde	581
scDesign3	175
scDiagnostics	137
scDotPlot	172
scds	573
SCFA	175
scFeatureFilter	188
scFeatures	167
scfind	22
scGPS	202
scGraphVerse	21
schex	253
scHiCcompare	115
scHOT	211
scider	161
scifer	168
ScISI	150
scLANE	20
scMAGeCK	27
scmap	499
scMerge	510
scMET	170
scmeth	201
scMitoMut	135
scMultiSim	166
SCnorm	279
scone	342
Sconify	181
SCOPE	206
scoreInvHap	201
scoup	119
scp	328
scPCA	234
scPipe	275
scQTLtools	91
scran	5664
scrapper	825
scReClassify	216
scRecover	223
screenCounter	142
ScreenR	133
scRepertoire	815
scRNAseqApp	163
scruff	206
scry	482
scShapes	147
scsR	73
scTensor	189
scTGIF	213
scTHI	176
scTreeViz	159
scuttle	9893
scviR	123
SDAMS	180
seahtrue	147
sechm	273
segmenter	159
segmentSeq	303
selectKSigs	150
SELEX	235
SemDist	230
semisup	168
SemSim	9
SEPA	29
SEPIRA	92
seq2pathway	204
seqArchR	164
seqArchRplus	139
SeqArray	1141
seqbias	133
seqCAT	203
seqCNA	87
seqcombo	154
SeqGate	169
SeqGSEA	269
seq.hotSPOT	133
Seqinfo	10004
seqLogo	3754
seqPattern	1013
seqplots	92
seqsetvis	247
SeqSQC	231
seqTools	234
SeqVarTools	685
SEraster	109
sesame	883
SETA	23
SEtools	197
sevenbridges	236
sevenC	219
SGCP	191
SGSeq	500
SharedObject	270
shinybiocloader	30
shinyDSP	117
shinyepico	184
shiny.gosling	126
shinyMethyl	264
shinyTANDEM	39
ShortRead	6692
SIAMCAT	288
SICtools	230
sigaR	73
SigCheck	212
sigFeature	426
SigFuge	236
siggenes	3321
sights	195
signatureSearch	291
signeR	242
signet	17
signifinder	156
sigPathway	96
SigsPack	177
sigsquared	191
SIM	229
SIMAT	209
SimBindProfiles	104
SimBu	181
SIMD	166
SimFFPE	156
similaRpeak	230
SIMLR	334
simona	800
simPIC	130
simpleaffy	150
simpleSeg	251
simplifyEnrichment	1332
simulatorAPMS	18
simulatorZ	79
sincell	256
single	79
SingleCellAlleleExperiment	132
SingleCellExperiment	18803
SingleCellSignalR	360
singleCellTK	421
SingleMoleculeFootprinting	170
SingleR	5142
singscore	1797
SiPSiC	133
SISPA	68
sitadela	157
Site2Target	95
sitePath	218
sizepower	202
SJava	13
sketchR	130
skewr	204
slalom	177
SLGI	112
slingshot	2383
slinky	54
SLqPCR	198
SMAD	156
SMAP	98
smartid	129
SmartPhos	14
SMITE	222
smoothclust	132
smoppix	104
SNAGEE	212
snapCGH	179
snapcount	176
snifter	394
snm	278
SNPchip	138
SNPediaR	166
SNPhood	259
snpMatrix	22
SNPRelate	2192
snpStats	2442
soGGi	545
sojourner	40
SomatiCA	41
SomaticSignatures	311
SOMNiBUS	144
sosta	140
SpaceMarkers	136
SpacePAC	144
SpaceTrooper	49
spacexr	294
spade	39
Spaniel	200
SpaNorm	166
spARI	29
sparrow	425
SparseArray	50438
sparseDOSSA	57
sparseMatrixStats	16586
sparsenetgls	155
SparseSignatures	219
spaSim	170
SpatialCPie	196
spatialDE	213
SpatialDecon	282
SpatialExperiment	6785
SpatialExperimentIO	153
spatialFDA	157
SpatialFeatureExperiment	346
spatialHeatmap	189
SpatialOmicsOverlay	143
spatialSimGP	113
spatzie	147
speckle	378
specL	237
SpeCond	249
Spectra	2902
SpectralTAD	220
SpectraQL	125
SpectriPy	37
SPEM	207
SPIA	804
SPIAT	225
SPICEY	27
spicyR	349
SpidermiR	78
spikeLI	176
spiky	167
spillR	128
spkTools	213
splatter	621
splicegear	86
spliceR	78
spliceSites	50
SpliceWiz	219
SplicingFactory	158
SplicingGraphs	287
SplineDV	130
splineTCDiffExpr	3
splineTimeR	229
SPLINTER	202
splots	273
SPONGE	216
spoon	126
SpotClean	198
SPOTlight	436
spotSegmentation	45
SpotSweeper	200
spqn	195
SPsimSeq	205
SQLDataFrame	171
SQUADD	63
squallms	124
sRACIPE	224
SRAdb	506
sRAP	52
SRGnet	27
srnadiff	184
sscore	123
sscu	214
sSeq	289
ssize	230
sSNAPPY	170
SSPA	187
ssPATHS	176
ssrch	174
ssviz	229
StabMap	124
STADyUM	21
stageR	415
stam	20
STAN	97
standR	280
staRank	85
StarBioTrek	76
Starr	121
STATegRa	293
StatescopeR	2
Statial	209
statTarget	281
STdeconvolve	92
stepNorm	210
stepwiseCM	43
stJoincount	164
stPipe	31
strandCheckR	191
Streamer	234
STRINGdb	2435
STROMA4	115
struct	304
Structstrings	201
structToolbox	234
StructuralVariantAnnotation	336
SubCellBarCode	185
subSeq	260
SUITOR	146
SummarizedBenchmark	114
SummarizedExperiment	46135
Summix	143
SuperCellCyto	28
supersigs	206
supraHex	271
surfaltr	192
SurfR	132
survClust	126
survcomp	1743
survtype	171
Sushi	169
sva	8581
svaNUMT	147
SVAPLSseq	55
svaRetro	149
SVM2CRM	61
SVMDO	155
SVP	122
SWATH2stats	207
SwathXtend	167
swfdr	238
SwimR	50
switchBox	210
switchde	204
synapsis	172
synapter	220
synergyfinder	364
SynExtend	211
synlet	185
SynMut	169
syntenet	253
systemPipeR	1542
systemPipeShiny	191
systemPipeTools	157
tadar	148
TADCompare	210
tanggle	200
TAPseq	189
target	208
TargetDecoy	182
TargetScore	215
TargetSearch	218
TarSeqQC	97
TaxSEA	104
TBSignatureProfiler	220
TCC	463
TCGAbiolinks	5612
TCGAbiolinksGUI	61
TCGAutils	742
TCseq	814
TDARACNE	79
TDbasedUFE	151
TDbasedUFEadv	179
TEKRABber	161
TENET	97
TENxIO	224
tenXplore	204
TEQC	280
terapadog	123
ternarynet	189
terraTCGAdata	145
TFARM	180
TFBSTools	3571
TFEA.ChIP	265
TFHAZ	216
TFutils	214
tidybulk	395
tidyCoverage	148
tidyFlowCore	119
tidyomics	157
tidysbml	128
tidySingleCellExperiment	411
tidySpatialExperiment	163
tidySummarizedExperiment	339
tidytof	107
tigre	251
TileDBArray	183
tilingArray	324
timecourse	350
timeOmics	221
timescape	174
TimeSeriesExperiment	64
TimiRGeN	46
TIN	240
TissueEnrich	346
TitanCNA	207
tkWidgets	1703
tLOH	163
TMixClust	194
TMSig	126
TNBC.CMS	53
TnT	213
TOAST	633
tofsims	53
tomoda	163
tomoseqr	164
TOP	138
ToPASeq	59
topconfects	282
topdownr	222
topGO	2674
ToxicoGx	204
TPP	292
TPP2D	189
tpSVG	127
tracktables	399
trackViewer	806
tradeSeq	971
TrajectoryGeometry	140
TrajectoryUtils	2529
transcriptogramer	220
transcriptR	236
transformGamPoi	191
transite	206
tRanslatome	250
transmogR	126
transomics2cytoscape	175
TransView	242
TraRe	28
traseR	247
Travel	5
traviz	72
TreeAndLeaf	229
treeclimbR	136
treeio	26041
treekoR	203
TreeSummarizedExperiment	2395
TREG	171
trena	109
TReNA	4
Trendy	213
TRESS	190
tricycle	414
TrIdent	110
triform	58
trigger	170
trio	274
triplex	290
tripr	177
tRNA	238
tRNAdbImport	198
tRNAscanImport	191
TRONCO	332
TSAR	122
TSCAN	665
tscR	37
tspair	89
TSRchitect	112
TSSi	67
ttgsea	148
TTMap	220
TurboNorm	250
TVTB	243
tweeDEseq	282
twilight	311
twoddpcr	216
txcutr	153
txdbmaker	5781
tximeta	1436
tximport	4335
TxRegInfra	21
TypeInfo	95
UCell	1816
UCSC.utils	41815
Ularcirc	223
UMI4Cats	186
uncoverappLib	177
UNDO	230
unifiedWMWqPCR	193
UniProt.ws	812
Uniquorn	228
universalmotif	1346
updateObject	157
UPDhmm	125
uSORT	239
VAExprs	153
VanillaICE	348
VarCon	191
variancePartition	1466
VariantAnnotation	9197
VariantExperiment	129
VariantFiltering	254
VariantTools	287
vasp	14
VaSP	210
vbmp	259
VCFArray	218
VDJdive	158
Vega	55
VegaMC	269
velociraptor	257
veloviz	148
VennDetail	346
VERSO	156
vidger	229
viper	1096
virtualArray	16
ViSEAGO	279
VisiumIO	223
visiumStitched	123
vissE	228
vmrseq	90
Voyager	279
VplotR	205
vsclust	155
vsn	5858
vtpnet	237
vulcan	166
waddR	138
wateRmelon	981
wavClusteR	236
waveTiling	88
weaver	198
webbioc	255
weitrix	204
widgetInvoke	7
widgetTools	1672
wiggleplotr	282
wpm	191
wppi	139
Wrench	1922
XAItest	96
XBSeq	126
xCell2	164
XCIR	14
xcms	1974
xcore	161
XDE	310
XeniumIO	111
xenLite	120
Xeva	197
XINA	183
xmapbridge	202
xmapcore	13
XNAString	128
xps	69
XVector	55870
y2hStat	15
yamss	250
YAPSA	272
yaqcaffy	160
yarn	278
zellkonverter	2566
zenith	224
zFPKM	218
zinbwave	850
zitools	119
zlibbioc	34440
ZygosityPredictor	151