Package	Download_score
a4	267
a4Base	312
a4Classif	263
a4Core	315
a4Preproc	400
a4Reporting	231
ABAEnrichment	89
ABarray	304
abseqR	208
ABSSeq	335
acde	286
ACE	230
aCGH	457
ACME	454
ADaCGH2	315
ADAM	214
ADAMgui	195
ADAPT	96
adaptest	28
adductomicsR	195
ADImpute	212
adSplit	324
adverSCarial	140
Aerith	22
AffiXcan	201
affxparser	2227
affy	8866
affycomp	331
AffyCompatible	130
affyContam	284
affycoretools	607
AffyExpress	106
affyILM	269
affyio	9064
affylmGUI	362
affyPara	140
affypdnn	155
affyPLM	1329
affyQCReport	102
AffyRNADegradation	231
AffyTiling	61
AGDEX	257
aggregateBioVar	222
Agi4x44PreProcess	44
agilp	200
AgiMicroRna	353
AHMassBank	151
AIMS	617
airpart	177
alabaster	153
alabaster.base	4641
alabaster.bumpy	150
alabaster.files	146
alabaster.mae	164
alabaster.matrix	4324
alabaster.ranges	4269
alabaster.sce	1354
alabaster.schemas	4187
alabaster.se	4241
alabaster.sfe	90
alabaster.spatial	161
alabaster.string	167
alabaster.vcf	153
ALDEx2	1630
alevinQC	213
AllelicImbalance	271
AlphaBeta	218
AlphaMissenseR	166
alpine	142
ALPS	26
AlpsNMR	238
alsace	76
altcdfenvs	331
AMARETTO	226
AMOUNTAIN	229
amplican	275
ampliQueso	70
AnalysisPageServer	48
anamiR	37
anansi	39
Anaquin	214
ANCOMBC	1833
AneuFinder	246
ANF	192
anglemania	51
animalcules	328
annaffy	477
AnnBuilder	24
anndataR	263
annmap	252
annoLinker	7
annotate	19388
AnnotationDbi	41547
AnnotationFilter	12048
AnnotationForge	2134
AnnotationFuncs	69
AnnotationHub	12936
AnnotationHubData	587
annotationTools	297
annotatr	818
anota	257
anota2seq	291
antiProfiles	209
AnVIL	761
AnVILAz	140
AnVILBase	569
AnVILBilling	167
AnVILGCP	155
AnVILPublish	165
AnVILWorkflow	148
APAlyzer	190
apComplex	310
apeglm	5419
APL	170
applera	11
appreci8R	225
aroma.light	1939
ArrayExpress	567
ArrayExpressHTS	80
arrayMagic	77
arrayMvout	300
arrayQCplot	11
arrayQuality	408
arrayQualityMetrics	639
ArrayTools	130
ArrayTV	100
ARRmNormalization	200
artMS	262
ASAFE	164
ASEB	180
ASGSCA	208
ASICS	307
asmn	7
ASpediaFI	49
ASpli	330
AssessORF	228
ASSET	276
ASSIGN	338
assorthead	14979
ASURAT	205
asuri	20
ATACCoGAPS	29
ATACseqQC	613
ATACseqTFEA	183
atena	193
AtlasRDF	22
atSNP	265
attract	315
AUCell	3450
autonomics	213
Autotuner	29
AWAggregator	55
AWFisher	197
awst	181
BaalChIP	257
BAC	100
bacon	347
BADER	225
BadRegionFinder	212
BAGS	216
ballgown	1541
bambu	454
bamsignals	1301
BANDITS	224
bandle	197
Banksy	459
banocc	181
barbieQ	121
barcodetrackR	156
basecallQC	237
BaseSpaceR	228
Basic4Cseq	260
BASiCS	397
BASiCStan	159
BasicSTARRseq	196
basilisk	4107
basilisk.utils	3485
batchCorr	69
batchelor	4501
BatchQC	300
BatchSVG	145
BayesKnockdown	190
BayesPeak	95
BayesSpace	554
bayNorm	237
baySeq	724
BBCAnalyzer	254
BCRANK	397
bcSeq	184
BDMMAcorrect	55
beachmat	18103
beachmat.hdf5	265
beachmat.tiledb	109
beadarray	786
beadarraySNP	137
BeadDataPackR	715
BeadExplorer	16
BEARscc	90
BEAT	304
BEclear	217
bedbaser	153
beer	184
benchdamic	120
BERT	134
betaHMM	137
betr	77
bettr	144
BG2	147
bgafun	108
BgeeCall	225
BgeeDB	249
BGmix	118
bgx	190
BHC	129
BicARE	307
BiFET	192
BiGGR	189
bigmelon	282
bigmemoryExtras	55
bigPint	82
bim	12
BindingSiteFinder	198
bioassayR	269
Biobase	56979
biobroom	397
biobtreeR	152
bioCancer	241
BioCartaImage	139
BiocBaseUtils	9538
BiocBook	174
BiocCaseStudies	129
BiocCheck	1870
biocDatasets	6
BiocDockerManager	35
BiocFHIR	166
BiocFileCache	28345
BiocGenerics	67318
Bioc.gff	52
biocGraph	348
BiocHail	95
BiocHubsShiny	172
BiocInstaller	147
BiocIO	20882
BiocMaintainerApp	0
biocmake	936
BiocNeighbors	12412
BiocOncoTK	104
BioCor	266
BiocParallel	59482
BiocPkgTools	375
biocroxytest	124
BiocSet	567
BiocSingular	14460
BiocSklearn	247
BiocStyle	6831
biocthis	564
BiocVersion	68814
biocViews	4658
BiocWorkflowTools	263
biodb	267
biodbChebi	162
biodbExpasy	29
biodbHmdb	133
biodbKegg	56
biodbLipidmaps	36
biodbMirbase	22
biodbNcbi	127
biodbNci	120
biodbUniprot	116
bioDist	427
BioGA	121
biomaRt	22683
BioMedR	12
biomformat	6654
BioMM	59
BioMVCClass	246
biomvRCNS	255
BioNAR	190
BioNERO	355
BioNet	530
BioNetStat	75
BioQC	322
BioSeqClass	85
biosigner	243
Biostrings	51995
biosvd	72
BioTIP	195
biotmle	221
biovizBase	5953
BiRewire	305
birta	79
birte	56
biscuiteer	206
BiSeq	361
BitSeq	210
blacksheepr	202
blase	45
blima	235
BLMA	281
BloodGen3Module	198
bluster	7325
bnbc	222
bnem	175
BOBaFIT	178
borealis	161
BPRMeth	292
BRAIN	336
brainflowprobes	65
brainImageR	14
BrainSABER	50
BrainStars	71
branchpointer	219
breakpointR	230
BreastSubtypeR	140
brendaDb	200
BREW3R.r	148
BRGenomics	150
bridge	101
BridgeDbR	245
broadSeq	103
BrowserViz	269
BrowserVizDemo	12
BSgenome	13459
BSgenomeForge	292
bsseq	1708
BubbleTree	242
BufferedMatrix	200
BufferedMatrixMethods	225
bugsigdbr	720
BulkSignalR	199
BUMHMM	220
bumphunter	2757
BumpyMatrix	688
BUS	265
BUScorrect	212
BUSpaRse	382
BUSseq	232
CaDrA	138
CAEN	166
CAFE	303
CAGEfightR	346
cageminer	188
CAGEr	445
CALIB	96
CalibraCurve	45
calm	146
CAMERA	758
CAMTHC	24
CaMutQC	135
canceR	266
cancerclass	527
CancerInSilico	68
CancerMutationAnalysis	90
CancerSubtypes	153
CAnD	84
caOmicsV	137
cardelino	193
Cardinal	514
CardinalIO	277
CARDspa	170
carnation	0
CARNIVAL	317
casper	302
CATALYST	680
Category	1526
categoryCompare	297
CatsCradle	145
CausalR	225
cbaf	207
CBEA	56
cBioPortalData	617
CBN2Path	41
CBNplot	200
cbpManager	197
CCAFE	145
ccfindR	213
ccImpute	174
ccmap	184
CCPlotR	183
CCPROMISE	206
ccrepe	275
CDI	148
celaref	234
celda	1042
CellaRepertorium	61
CellBarcode	201
cellbaseR	257
CellBench	280
cellGrowth	83
cellHTS	128
cellHTS2	254
CelliD	350
cellity	240
CellMapper	211
CellMentor	10
cellmig	58
cellmigRation	175
CellMixS	347
CellNOptR	370
cellscape	160
CellScore	131
CellTrails	231
cellTree	167
cellxgenedp	194
CEMiTool	324
censcyt	165
Cepo	296
ceRNAnetsim	160
CeTF	237
CexoR	283
CFAssay	167
cfdnakit	181
cfDNAPro	231
cfTools	145
CGEN	195
CGHbase	649
CGHcall	612
cghMCR	332
CGHnormaliter	260
CGHregions	273
ChAMP	909
CHARGE	25
charm	103
ChemmineOB	508
ChemmineR	1061
CHETAH	237
chevreulPlot	133
chevreulProcess	137
chevreulShiny	108
ChIC	52
Chicago	275
chihaya	208
chimera	117
chimeraviz	307
ChIPanalyser	245
ChIPComp	220
chipenrich	305
ChIPexoQual	237
ChIPpeakAnno	1244
ChIPQC	516
ChIPseeker	2676
chipseq	869
ChIPseqR	340
ChIPSeqSpike	40
ChIPsim	301
ChIPXpress	233
chopsticks	230
chroGPS	116
Chromatograms	58
chromDraw	212
ChromHeatMap	259
ChromoViz	28
chromPlot	291
ChromSCape	194
chromstaR	222
chromswitch	81
chromVAR	1433
CHRONOS	228
cicero	494
cigarillo	4910
CIMICE	167
CINdex	216
circRNAprofiler	246
CircSeqAlignTk	149
cisPath	131
CiteFuse	209
ClassifyR	488
cleanUpdTSeq	316
CleanUpRNAseq	148
cleaver	428
clevRvis	151
clippda	237
clipper	365
cliProfiler	162
cliqueMS	221
Clomial	199
Clonality	101
clonotypeR	69
clst	248
clstutils	238
CluMSID	213
ClustAll	144
clustComp	208
clusterExperiment	526
ClusterFoldSimilarity	145
ClusterGVis	20
ClusterJudge	198
clusterProfiler	24831
clusterSeq	206
ClusterSignificance	215
clusterStab	251
clustifyr	339
ClustIRR	150
clustSIGNAL	137
CMA	325
cmapR	646
CNAnorm	232
CNEr	2385
cn.farms	280
cn.mops	477
CNORdt	210
CNORfeeder	262
CNORfuzzy	260
CNORode	252
CNPBayes	81
CNTools	314
CNVfilteR	175
CNVgears	51
cnvGSA	209
CNViz	139
CNVMetrics	168
CNVPanelizer	248
CNVRanger	241
CNVrd2	268
CNVtools	49
cobindR	93
CoCiteStats	212
COCOA	266
codelink	368
CODEX	346
coexnet	70
CoGAPS	401
cogena	312
cogeqc	204
Cogito	179
coGPS	221
COHCAP	111
cola	420
comapr	141
combi	182
coMET	197
coMethDMR	179
compartmap	84
COMPASS	313
compcodeR	377
CompensAID	8
compEpiTools	244
CompGO	78
ComplexHeatmap	19905
CompoundDb	466
ComPrAn	144
compSPOT	131
conclus	37
concordexR	161
condcomp	8
condiments	261
CONFESS	265
consensus	192
ConsensusClusterPlus	3182
consensusDE	200
consensusOV	241
consensusSeekeR	235
consICA	169
CONSTANd	168
contiBAIT	163
conumee	386
convert	355
copa	261
COPDSexualDimorphism	8
copynumber	277
CopyNumber450k	42
CopyNumberPlots	212
CopywriteR	155
Coralysis	95
coRdon	401
CoRegFlux	19
CoRegNet	127
CoreGx	520
Cormotif	249
CorMut	49
coRNAi	71
corral	217
CORREP	88
coseq	319
CoSIA	145
cosmiq	239
cosmo	65
cosmoGUI	25
cosmosR	253
COSNet	206
COTAN	210
CountClust	72
countsimQC	330
covEB	213
CoverageView	270
covRNA	202
CPSM	126
cpvSNP	256
cqn	475
CRImage	324
CRISPRball	105
crisprBase	252
crisprBowtie	232
crisprBwa	142
crisprDesign	246
crisprScore	262
CRISPRseek	365
crisprseekplus	72
crisprShiny	114
CrispRVariants	317
crisprVerse	176
crisprViz	229
crlmm	485
CrossICC	11
crossmeta	151
crumblr	128
crupR	125
CSAR	307
csaw	698
csdR	154
CSOA	50
CSSP	55
CSSQ	176
ctc	447
CTdata	151
CTDquerier	341
CTexploreR	138
ctgGEM	28
cTRAP	230
ctsGE	215
CTSV	153
cummeRbund	436
CuratedAtlasQueryR	167
customCMPdb	188
customProDB	237
CVE	36
cyanoFilter	176
cycle	272
cydar	285
cypress	158
CytoDx	179
cytofast	30
cytofkit	62
CyTOFpower	115
cytofQC	127
CytoGLMM	175
cytoKernel	172
cytolib	2836
cytomapper	511
CytoMDS	144
cytoMEM	197
CytoML	740
CytoPipeline	177
CytoPipelineGUI	138
CytoTree	43
cytoviewer	187
dada2	3048
dagLogo	336
daMA	251
DAMEfinder	244
damidBind	15
DaMiRseq	267
Damsel	145
dandelionR	135
DAPAR	317
dar	139
DART	272
DASC	3
DASiR	40
dasper	50
DAVIDQuery	33
DBChIP	103
dcanr	355
DCATS	158
dce	128
dcGSA	181
DChIPRep	102
ddCt	312
ddgraph	62
ddPCRclust	220
dearseq	250
debCAM	177
debrowser	319
decemedip	9
DECIPHER	3438
deco	67
DEComplexDisease	69
decompTumor2Sig	209
DeconRNASeq	406
decontam	1886
decontX	491
DeconvoBuddies	131
deconvR	200
decoupleR	2015
DEDS	127
DeeDeeExperiment	53
DeepBlueR	106
DeepPINCS	172
deepSNV	405
DeepTarget	131
DEFormats	450
DegCre	165
DegNorm	204
DEGraph	212
DEGreport	766
DEGseq	392
DelayedArray	47965
DelayedDataFrame	208
DelayedMatrixStats	16931
DelayedRandomArray	173
DelayedTensor	174
DELocal	137
deltaCaptureC	161
deltaGseg	196
DeMAND	162
DeMixT	235
demuxmix	222
demuxSNP	163
DenoIST	3
densvis	773
DEP	946
DepecheR	221
DepInfeR	164
DeProViR	17
DEqMS	450
derfinder	778
derfinderHelper	683
derfinderPlot	304
DEScan2	247
DESeq	267
DESeq2	28016
DEsingle	377
DESpace	205
destiny	1095
DEsubs	246
DEWSeq	219
DExMA	191
DEXSeq	1906
dexus	90
DFP	246
DFplyr	135
DIAlignR	73
DiffBind	1452
diffcoexp	233
diffcyt	531
DifferentialRegulation	174
diffGeneAnalysis	197
diffHic	345
DiffLogo	241
diffloop	197
diffuStats	240
diffUTR	190
diggit	204
Dino	188
dinoR	148
Director	81
dir.expiry	5378
DirichletMultinomial	4791
discordant	247
DiscoRhythm	233
distinct	271
dittoSeq	1464
divergence	174
dks	176
DMCFB	195
DMCHMM	192
dmGsea	91
DMRcaller	311
DMRcate	1214
DMRforPairs	104
DMRScan	263
dmrseq	401
DNABarcodeCompatibility	150
DNABarcodes	295
DNAcopy	4273
DNAcycP2	130
DNAfusion	174
DNaseR	16
DNAshapeR	374
DNEA	82
domainsignatures	56
dominatR	20
DominoEffect	179
dominoSignal	145
doppelgangR	240
DOQTL	97
Doscheda	222
DOSE	24476
doseR	237
DOtools	29
DOTSeq	9
doubletrouble	211
dpeak	54
drawProteins	292
dreamlet	282
DRIMSeq	549
DriverNet	211
DropletUtils	2728
drugfindR	9
drugTargetInteractions	184
DrugVsDisease	243
dSimer	59
DspikeIn	44
DSS	899
dStruct	155
DTA	198
dualKS	118
Dune	179
DupChecker	39
DuplexDiscovereR	133
dupRadar	272
dyebias	294
DynDoc	1723
easier	247
EasyCellType	183
easylift	153
EasyqpcR	82
easyreporting	181
easyRNASeq	329
EBarrays	438
EBcoexpress	244
EBImage	3244
EBSEA	191
EBSeq	628
EBSeqHMM	115
ecolitk	312
EDASeq	1842
edd	52
EDDA	82
edge	292
edgeR	26791
EDIRquery	152
eds	332
eegc	91
EGAD	291
EGSEA	364
eiR	237
eisa	173
eisaR	275
ELBOW	86
ELMER	446
ELViS	131
EMDomics	282
EmpiricalBrownsMethod	242
ENCODExplorer	63
EnhancedVolcano	7015
enhancerHomologSearch	182
EnMCB	179
ENmix	503
EnrichDO	147
EnrichedHeatmap	1115
EnrichmentBrowser	660
enrichplot	24495
enrichTF	71
enrichViewNet	170
ensembldb	10229
ensemblVEP	158
ENVISIONQuery	43
epialleleR	212
EpiCompare	186
epidecodeR	170
EpiDISH	924
epigenomix	243
epigraHMM	249
epihet	38
EpiMix	177
epimutacions	182
epiNEM	249
EpipwR	135
epiregulon	141
epiregulon.extra	151
epiSeeker	3
epistack	190
epistasisGA	156
EpiTxDb	240
epivizr	362
epivizrChart	221
epivizrData	248
epivizrServer	224
epivizrStandalone	253
erccdashboard	249
erma	225
ERSSA	206
esATAC	213
escape	558
escheR	243
esetVis	246
eudysbiome	267
evaluomeR	211
EventPointer	271
EWCE	320
ExCluster	169
ExiMiR	278
exomeCopy	356
exomePeak	106
exomePeak2	123
exonmap	35
ExperimentHub	9045
ExperimentHubData	479
ExperimentSubset	188
explorase	49
ExploreModelMatrix	367
ExpressionAtlas	255
ExpressionView	94
exprExternal	14
externalVector	16
extraChIPs	220
fabia	340
facopy	127
factDesign	273
factR	131
faers	194
FamAgg	248
famat	211
farms	151
fastLiquidAssociation	213
FastqCleaner	235
fastreeR	185
fastseg	1121
fbat	30
FCBF	91
fCCAC	261
fCI	219
fcoex	89
fcScan	248
fdrame	205
FEAST	311
FeatSeekR	138
fedup	175
FELLA	313
FEM	81
fenr	161
ffpe	275
fgga	173
FGNet	277
fgsea	27685
FilterFFPE	208
findIPs	136
FindIT2	216
FindMyFriends	66
FinfoMDS	46
FISHalyseR	179
fishpond	584
FitHiC	197
flagme	220
FLAMES	198
flipflop	66
flowAI	663
flowBeads	259
flowBin	215
flowcatchR	281
flowCHIC	228
flowCL	66
flowClean	358
flowClust	1163
flowCore	3098
flowCut	259
flowCyBar	160
flowDensity	479
flowFit	70
flowFlowJo	49
flowFP	411
flowGate	198
flowGraph	176
flowMap	155
flowMatch	265
flowMeans	406
flowMerge	286
flowPeaks	320
flowPhyto	45
flowPloidy	201
flowPlots	176
flowQ	96
flowQB	81
FlowRepositoryR	72
FlowSOM	1274
flowSpecs	219
flowSpy	26
flowStats	871
flowTime	245
flowTrans	290
flowType	123
flowUtils	185
flowViz	1346
flowVS	296
flowWorkspace	1633
fmcsR	456
fmrs	183
fobitools	188
focalCall	54
FoldGO	132
FourCSeq	115
FRASER	288
frenchFISH	134
FRGEpistasis	159
frma	366
frmaTools	297
FScanR	28
FunChIP	127
FunciSNP	113
funOmics	132
funtooNorm	229
FuseSOM	181
G4SNVHunter	149
GA4GHclient	201
GA4GHshiny	188
gaga	312
gage	1035
gaggle	133
gaia	85
GAPGOM	41
GAprediction	158
garfield	164
GARS	192
GateFinder	183
gatom	187
gaucho	45
GBScleanR	169
gcapc	286
gcatest	191
gCMAP	97
gCMAPWeb	97
GCPtools	137
gCrisprTools	268
gcrma	1449
GCSConnection	22
GCSFilesystem	19
GCSscore	66
GDCRNATools	346
gDNAx	157
gDR	134
gDRcore	159
gDRimport	162
gDRstyle	150
gDRutils	152
GDSArray	223
gdsfmt	2597
GeDi	151
geecc	64
GEM	186
gemini	163
gemma.R	209
genArise	232
genbankr	237
gene2pathway	18
GeneAccord	54
GeneAnswers	145
geneAttribution	235
GeneBreak	249
geneClassifiers	209
GENE.E	30
GeneExpressionSignature	274
genefilter	13278
genefu	641
GeneGA	166
GeneGeneInteR	143
GeneGroupAnalysis	15
GeneMeta	404
GeneNetworkBuilder	290
GeneOverlap	989
geneplast	273
geneplotter	4051
GeneR	38
geneRecommender	231
GeneRegionScan	279
GeneRfold	11
geneRxCluster	223
GeneSelectMMD	272
GeneSelector	80
GENESIS	658
GeneSpring	39
GeneStructureTools	245
geNetClassifier	289
GeneticsBase	33
GeneticsDesign	49
GeneticsPed	238
GeneTonic	320
GeneTraffic	25
GeneTS	21
geneXtendeR	248
GENIE3	1738
genoCN	120
GenoGAM	89
genomation	989
GenomAutomorphism	174
GenomeBase	8
GenomeGraphs	103
GenomeInfoDb	54746
genomeIntervals	327
genomes	228
GenomicAlignments	24481
GenomicDataCommons	1107
GenomicDistributions	245
GenomicFeatures	18404
GenomicFiles	1134
genomicInstability	184
GenomicInteractionNodes	161
GenomicInteractions	569
GenomicOZone	178
GenomicPlot	196
GenomicRanges	50745
GenomicScores	855
GenomicSuperSignature	218
GenomicTuples	235
Genominator	101
genoset	118
genotypeeval	78
GenoView	19
genphen	109
GenProSeq	157
GenRank	28
GenVisR	442
GeoDiff	170
GEOexplorer	153
GEOfastq	171
GEOmetadb	460
geomeTriD	164
GeomxTools	548
GEOquery	12178
GEOsearch	30
GEOsubmission	232
GeoTcgaData	199
gep2pep	188
gespeR	146
getDEE2	185
geva	178
GEWIST	172
geyser	131
gff3Plotter	12
gg4way	156
GGBase	150
ggbio	2725
ggcyto	1210
ggkegg	540
ggmanh	231
ggmsa	765
GGPA	174
ggsc	199
ggseqalign	109
ggspavis	422
GGtools	217
ggtree	28641
ggtreeDendro	165
ggtreeExtra	1910
ggtreeSpace	132
GIGSEA	187
ginmappeR	126
gINTomics	132
girafe	295
GISPA	112
GLAD	449
GladiaTOX	194
Glimma	1146
glmGamPoi	6297
glmSparseNet	255
GlobalAncova	1277
globalSeq	199
globaltest	1982
GloScope	153
glycoTraitR	3
gmapR	277
GmicR	186
gmoviz	205
GMRP	242
GNET2	178
GNOSIS	139
goatea	8
goCluster	11
GOexpress	353
GOfuncR	372
GOFunction	110
GoogleGenomics	52
GOpro	270
goProfiles	380
GOSemSim	22561
goseq	1647
GOSim	148
goSorensen	159
goSTAG	278
GOstats	1532
GOsummaries	118
GOTHiC	393
goTools	270
GPA	155
gpart	97
gpls	344
gprege	80
gpuMagic	162
gQTLBase	73
gQTLstats	98
GrafGen	144
gramm4R	17
GRaNIE	202
granulator	187
graper	180
graph	22392
GraphAlignment	191
GraphAT	282
graphite	4722
GraphPAC	131
GRENITS	199
GreyListChIP	1296
GRmetrics	266
groHMM	279
GRridge	100
GSALightning	170
GSAR	277
GSCA	229
gscreend	188
GSEABase	10608
GSEABenchmarkeR	243
GSEAlm	330
GSEAmining	207
gsean	219
GSgalgoR	191
GSReg	217
GSRI	252
GSVA	9021
gtrellis	327
GUIDEseq	310
Guitar	349
gVenn	59
Gviz	3576
GWAS.BAYES	188
gwascat	739
GWASTools	879
gwasurvivr	210
GWENA	228
gypsum	4110
h5mread	9594
h5vc	350
hapFabia	256
Harman	362
HarmonizR	190
Harshlight	224
hca	139
HCABrowser	32
HCAExplorer	15
HCAMatrixBrowser	9
HCsnip	76
HDF5Array	16339
HDTD	167
hdxmsqc	133
heatmaps	442
Heatplus	476
HelloRanges	364
HELP	256
HEM	252
hermes	258
HERON	154
Herper	192
hexbin	85
HGC	169
hiAnnotator	247
HIBAG	318
HicAggR	143
HiCaptuRe	50
HiCBricks	290
HiCcompare	475
HiCDCPlus	200
HiCDOC	184
HiCExperiment	240
HiContacts	233
HiCool	114
HiCParser	115
HiCPotts	57
hicrep	25
hicVennDiagram	159
hierGWAS	220
hierinf	146
HilbertCurve	292
HilbertVis	349
HilbertVisGUI	129
HiLDA	216
hipathia	249
HIPPO	171
hiReadsProcessor	196
HIREewas	221
HiTC	389
hmdbQuery	210
HMMcopy	512
HoloFoodR	132
hoodscanR	205
hopach	596
HPAanalyze	319
hpar	501
HPAStainR	28
HPiP	159
HTqPCR	379
HTSanalyzeR	104
HTSeqGenie	57
htSeqTools	108
HTSFilter	461
HuBMAPR	129
HubPub	477
HumanTranscriptomeCompendium	78
hummingbird	169
HVP	72
HybridExpress	141
HybridMTest	251
hypeR	230
hyperdraw	301
hypergraph	340
iASeq	170
iasva	225
iBBiG	245
Ibex	32
ibh	232
iBMQ	166
iCARE	210
Icens	508
icetea	204
iCheck	230
iChip	253
iClusterPlus	523
iCNV	181
iCOBRA	475
ideal	300
IdeoViz	257
idiogram	309
IdMappingAnalysis	77
IdMappingRetrieval	54
idpr	196
idr2d	246
IFAA	153
iFlow	24
igblastr	95
iGC	213
IgGeneUsage	188
igvR	251
igvShiny	186
IHW	1120
illuminaio	3038
ILoReg	213
imageHTS	149
imageTCGA	112
IMAS	162
imcRtools	350
Imetagene	70
IMMAN	186
immApex	305
immReferent	21
ImmuneSpaceR	111
immunoClust	218
immunogenViewer	106
immunotation	198
iModMix	44
IMPCdata	160
ImpulseDE	20
ImpulseDE2	46
impute	12132
INDEED	153
iNETgrate	130
infercnv	1778
infinityFlow	177
Informeasure	149
InPAS	312
INPower	233
inSilicoDb	81
inSilicoMerging	34
INSPEcT	321
INTACT	146
InTAD	211
intansv	276
interacCircos	143
InteractionSet	1881
InteractiveComplexHeatmap	622
interactiveDisplay	404
interactiveDisplayBase	3032
InterCellar	213
IntEREst	240
InterMineR	129
IntOMICS	25
IntramiRExploreR	208
inveRsion	52
IONiseR	385
iontree	38
iPAC	157
iPath	139
ipdDb	189
IPO	287
IPPD	75
IRanges	61524
IRISFGM	40
IrisSpatialFeatures	10
ISAnalytics	193
iscream	46
iSEE	676
iSEEde	169
iSEEfier	145
iSEEhex	187
iSEEhub	177
iSEEindex	160
iSEEpathways	158
iSEEtree	145
iSEEu	259
iSeq	191
ISLET	169
islify	117
iSNetwork	11
isobar	338
IsoBayes	155
IsoCorrectoR	218
IsoCorrectoRGUI	153
IsoformSwitchAnalyzeR	557
IsoGeneGUI	149
ISoLDE	168
isomiRs	256
iSPlot	16
ITALICS	267
iterativeBMA	229
iterativeBMAsurv	178
iterClust	56
iteremoval	50
IVAS	238
ivygapSE	212
IWTomics	253
jazzPanda	132
jmosaics	40
joda	78
JunctionSeq	62
karyoploteR	1162
katdetectr	172
KBoost	136
KCsmart	276
kebabs	342
KEGGgraph	6372
KEGGlincs	236
keggorth	15
keggorthology	320
KEGGprofile	84
KEGGREST	41437
KEGGSOAP	41
kimod	34
KinSwingR	203
kissDE	194
kmcut	124
KnowSeq	237
knowYourCG	151
koinar	147
LACE	231
LACHESIS	23
lapmix	125
LBE	325
lcmsPlot	2
ldblock	250
LEA	875
LedPred	176
lefser	642
lemur	179
les	267
levi	169
lfa	368
Lheuristic	103
limma	38815
limmaGUI	269
limpa	167
limpca	140
LimROTS	127
LINC	46
LineagePulse	60
lineagespot	163
LinkHD	200
linkSet	57
Linnorm	373
LinTInd	209
lionessR	223
lipidr	294
LipidTrend	76
LiquidAssociation	225
lisaClust	280
lmdme	234
LMGene	129
LOBSTAHS	212
loci2path	187
logicFS	277
logitT	106
Logolas	44
lol	44
LOLA	433
looking4clusters	42
LoomExperiment	700
LowMACA	97
LPE	277
LPEadj	105
lpNet	201
lpsymphony	1301
LRBaseDbi	179
LRcell	179
lumi	1367
lute	106
LVSmiRNA	85
LymphoSeq	250
M3C	678
M3D	85
M3Drop	587
m6Aboost	156
maanova	158
Maaslin2	1080
maaslin3	321
Macarron	123
macat	175
maCorrPlot	234
MACPET	76
MACSQuantifyR	155
MACSr	196
maDB	51
made4	475
MADSEQ	174
maftools	2918
MAGAR	183
MAGeCKFlute	275
magpie	176
magrene	163
MAI	165
maigesPack	194
MAIT	238
makecdfenv	411
makePlatformDesign	13
MANOR	258
manta	119
MantelCorr	198
MAPFX	140
mAPKL	100
maPredictDSC	209
mapscape	173
mariner	164
markeR	43
marr	205
marray	2125
martini	216
maser	269
maSigPro	577
maskBAD	249
MassArray	186
massiR	277
MassSpecWavelet	2084
MAST	2489
mastR	196
matchBox	191
matchprobes	28
MatrixGenerics	47149
MatrixQCvis	190
MatrixRider	241
matter	457
MaxContrastProjection	38
MBAmethyl	168
MBASED	289
MBCB	213
MBECS	174
mbkmeans	640
mbOmic	19
mBPCR	267
MBQN	212
mbQTL	124
MBttest	232
mcaGUI	76
MCbiclust	251
MCRestimate	75
mCSEA	257
mdgsa	86
mdp	247
mdqc	269
MDSvis	1
MDTS	189
MEAL	294
MeasurementError.cor	192
MEAT	223
MEB	206
MEDIPS	374
MEDME	252
megadepth	243
MEIGOR	245
Melissa	161
memes	356
MergeMaid	135
Mergeomics	235
MeSHDbi	373
meshes	327
meshr	315
MeSHSim	20
MesKit	259
messina	260
metaArray	106
Metab	104
metabCombiner	228
metabinR	157
MetaboAnnotation	315
MetaboCoreUtils	2917
MetaboDynamics	140
metabolomicsWorkbenchR	240
metabomxtr	216
MetaboSignal	296
metaCCA	180
MetaCyto	210
MetaDICT	43
metagene	183
metagene2	259
metagenomeFeatures	63
metagenomeSeq	2053
metahdep	222
metaMS	303
MetaNeighbor	277
MetaPhOR	171
metapod	6056
metapone	179
metaSeq	250
metaseqR	121
metaseqR2	242
metavizr	85
MetaVolcanoR	85
metaX	20
MetCirc	237
MethCP	64
methimpute	231
methInheritSim	196
methodical	126
MethPed	233
MethReg	212
methrix	297
MethTargetedNGS	192
methVisual	96
methyAnalysis	110
MethylAid	277
methylCC	231
methylclock	344
methylGSA	273
methyLImp2	150
methylInheritance	233
methylKit	1057
MethylMix	292
methylMnM	249
methylPipe	313
methylscaper	182
MethylSeekR	406
methylSig	256
methylumi	1702
methyvim	36
MetID	198
MetMashR	102
MetNet	244
mfa	247
Mfuzz	1514
MGFM	236
MGFR	212
MGnifyR	153
mgsa	269
mia	1696
miaDash	121
miaSim	200
miaTime	63
miaViz	449
MiChip	237
microbiome	2407
microbiomeDASim	165
microbiomeExplorer	174
microbiomeMarker	459
MicrobiomeProfiler	214
MicrobiotaProcess	602
microRNA	669
microSTASIS	116
MICSQTL	153
midasHLA	173
MIGSA	99
miloR	992
mimager	215
MIMOSA	122
mina	145
MineICA	358
minet	899
minfi	2572
MinimumDistance	289
MiPP	256
miQC	276
MIRA	245
MiRaGE	327
miRBaseConverter	366
miRcomp	239
mirIntegrator	236
MIRit	159
miRLAB	255
miRmine	136
miRNAmeConverter	185
miRNApath	185
miRNAtap	293
miRSM	212
miRsponge	15
miRspongeR	211
Mirsynergy	46
mirTarRnaSeq	199
missMethyl	1296
missRows	186
mist	105
mistyR	277
mitch	266
mitoClone2	182
mitology	150
mitoODE	42
mixOmics	3941
MLInterfaces	669
mlm4omics	11
MLP	395
MLSeq	319
MMAPPR2	35
MMDiff	76
MMDiff2	264
mmgmos	11
mmnet	47
MmPalateMiRNA	97
MMUPHin	293
mnem	254
moanin	181
mobileRNA	143
MobilityTransformR	26
MODA	193
ModCon	153
Modstrings	265
MOFA	29
MOFA2	1106
MOGAMUN	185
mogsa	403
MoleculeExperiment	176
MOMA	202
monaLisa	300
monocle	3753
Moonlight2R	161
MoonlightR	248
MoPS	55
mosaics	398
mosbi	191
MOSClip	134
mosdef	362
MOSim	211
Motif2Site	175
motifbreakR	418
motifcounter	204
MotifDb	993
motifmatchr	1662
MotifPeeker	126
motifRG	104
motifStack	1063
motifTestR	163
MotIV	119
MouseFM	162
MPAC	124
MPFE	161
mpra	262
MPRAnalyze	203
MQmetrics	33
mQTL.NMR	70
msa	2533
MSA2dist	205
MsBackendMassbank	198
MsBackendMetaboLights	160
MsBackendMgf	682
MsBackendMsp	383
MsBackendRawFileReader	216
MsBackendSql	193
MsCoreUtils	4095
MsDataHub	232
MSEADbi	6
MsExperiment	1517
MsFeatures	1726
msgbsR	224
MSGFgui	100
MSGFplus	70
msImpute	209
mslp	119
msmsEDA	394
msmsTests	410
MSnbase	3954
MSnID	458
mspms	151
MSPrep	149
msPurity	305
msqrob2	303
MsQuality	168
MSstats	836
MSstatsBig	163
MSstatsBioNet	143
MSstatsConvert	719
MSstatsLiP	247
MSstatsLOBD	144
MSstatsPTM	371
MSstatsQC	226
MSstatsQCgui	155
MSstatsResponse	45
MSstatsSampleSize	57
MSstatsShiny	224
MSstatsTMT	483
MSstatsTMTPTM	13
MTseeker	16
MuData	195
Mulcom	264
MultiAssayExperiment	7083
MultiBaC	203
multiClust	258
multicrispr	193
MultiDataSet	1725
multiGSEA	281
multiHiCcompare	289
MultiMed	219
multiMiR	682
MultimodalExperiment	161
multiOmicsViz	92
MultiRNAflow	161
multiscan	241
multiSight	39
multistateQTL	136
multiWGCNA	177
multtest	12593
mumosa	206
MungeSumstats	779
muscat	833
muscle	552
musicatk	203
MutationalPatterns	528
mutscan	49
MutSeqR	10
MVCClass	252
mvGST	47
MWASTools	293
mygene	548
myvariant	298
mzID	3636
mzR	4088
NADfinder	240
NanoMethViz	230
NanoStringDiff	235
NanoStringNCTools	545
NanoStringQCPro	100
nanotatoR	51
NanoTube	227
NarrowPeaks	83
NBAMSeq	176
NBSplice	54
ncdfFlow	1509
ncGTW	171
NCIgraph	179
ncRNAtools	181
ndexr	197
neaGUI	45
nearBynding	207
Nebulosa	1437
NeighborNet	53
nem	185
nempi	187
NetActivity	154
netbenchmark	38
netbiov	115
netboost	184
netboxr	41
netDx	64
nethet	227
netOmics	64
NetPathMiner	238
netprioR	162
netReg	28
netresponse	259
NetSAM	228
netSmooth	238
networkBMA	89
netZooR	95
NeuCA	77
NewWave	212
NGScopy	54
ngsReports	248
nipalsMCIA	166
nnNorm	266
nnSVG	232
NOISeq	732
nondetects	234
NoRCE	207
normalize450K	202
NormalyzerDE	382
NormqPCR	323
normr	309
notame	63
notameStats	39
notameViz	58
NPARC	209
npGSEA	256
NTW	179
nucleoSim	215
nucleR	342
nuCpos	193
nudge	69
nullranges	320
NuPoP	259
NxtIRFcore	54
OAtools	0
occugene	188
OCplus	256
octad	192
ODER	35
odseq	207
OGRE	162
OGSA	57
oligo	3270
oligoClasses	2192
OLIN	319
OLINgui	276
omada	129
OmaDB	298
omicade4	340
OmicCircos	337
omicplotR	187
omicRexposome	214
omicsGMF	42
OmicsLonDA	63
OmicsMarkeR	60
OmicsMLRepoR	85
OMICsPCA	247
omicsPrint	234
omicsViewer	193
Omixer	186
OmnipathR	1274
ompBAM	195
omXplore	188
Onassis	56
oncomix	199
oncoscanR	169
OncoScore	207
OncoSimulR	260
oneChannelGUI	101
oneSENSE	61
onlineFDR	146
ontoCAT	60
ontoProc	334
ontoTools	55
openCyto	1018
openPrimeR	248
openPrimeRui	74
OpenStats	142
OperaMate	26
oposSOM	293
oppar	237
oppti	91
optimalFlow	172
OPWeight	210
OrderedList	261
ORFhunteR	195
ORFik	423
OrganismDbi	3181
Organism.dplyr	424
orthogene	728
orthos	158
OSAT	239
Oscope	296
OSTA.data	185
OTUbase	283
OutlierD	101
OUTRIDER	380
OutSplice	164
OVESEG	185
PAA	268
packFinder	212
padma	208
PADOG	397
pageRank	174
PAIRADISE	224
paircompviz	212
pairedGSEA	148
pairkat	173
pairseqsim	5
pamr	57
pandaR	280
panelcn.mops	273
PAnnBuilder	62
PanomiR	172
panp	339
PANR	232
PanViz	90
PanVizGenerator	67
PAPi	97
pareg	37
parglms	243
parody	285
partCNV	146
PAST	233
Path2PPI	233
pathifier	234
pathlinkR	168
pathMED	87
PathNet	231
PathoStat	232
pathprint	38
pathRender	275
pathVar	111
pathview	5402
pathwayPCA	251
PathwaySplice	77
PatientGeneSets	21
paxtoolsr	154
Pbase	80
pbcmc	46
pcaExplorer	477
pcaGoPromoter	64
pcaMethods	5989
PCAN	262
PCAtools	1312
pcot2	147
PCpheno	165
pcxn	58
PDATK	186
pdInfoBuilder	376
pdmclass	134
PeacoQC	424
peakCombiner	44
peakPantheR	192
PECA	276
peco	199
Pedixplorer	161
pengls	152
PepSetTest	126
PepsNMR	257
pepStat	277
pepXMLTab	214
PERFect	62
periodicDNA	241
perturbatr	35
pfamAnalyzeR	352
PFP	37
PGA	139
pgca	149
PGSEA	213
pgUtils	31
pgxRpi	133
phantasus	233
phantasusLite	152
PharmacoGx	544
phemd	97
phenoDist	70
PhenoGeneRanker	146
phenomis	162
phenopath	359
phenoTest	354
PhenStat	204
philr	420
PhIPData	194
phosphonormalizer	166
PhosR	319
PhyloProfile	259
phyloseq	6744
Pi	109
piano	682
PICB	132
pickgene	206
PICS	255
Pigengene	228
PING	225
pint	49
pipeComp	225
pipeFrame	249
PIPETS	137
Pirat	115
PIUMA	120
pkgDepTools	151
plaid	10
planet	323
planttfhunter	150
plasmut	138
plateCore	135
plethy	121
plgem	371
plier	367
PloGO2	72
plotgardener	369
plotGrouper	182
PLPE	232
plrs	122
PLSDAbatch	145
plw	92
plyinteractions	158
plyranges	1429
plyxp	164
pmm	149
pmp	290
PMScanR	49
PoDCall	150
podkat	321
poem	128
pogos	203
polyester	225
Polyfit	61
PolySTest	127
Polytect	137
POMA	286
posDemux	2
POST	37
PoTRA	36
PowerExplorer	26
powerTCR	432
POWSC	176
ppcseq	177
PPInfer	264
ppiStats	201
pqsfinder	375
prada	133
pram	198
prebs	281
preciseTAD	254
PrecisionTrialDrawer	40
PREDA	302
predictionet	78
preprocessCore	16052
primirTSS	198
PrInCE	198
Prize	24
proActiv	257
proBAMr	220
proBatch	98
PROcess	270
procoil	324
ProCoNA	65
proDA	375
proFIA	87
profileplyr	364
profileScoreDist	192
progeny	871
projectR	228
pRoloc	653
pRolocGUI	296
PROMISE	250
PRONE	156
PROPER	296
PROPS	202
Prostar	249
prot2D	84
proteasy	41
proteinProfiles	163
ProteoDisco	199
ProteomicsAnnotationHubData	64
ProteoMM	224
proteoQC	62
protGear	182
ProtGenerics	12290
PSEA	118
psichomics	254
PSICQUIC	99
PSMatch	3009
psygenet2r	123
ptairMS	238
PubScore	39
pulsedSilac	32
puma	319
PureCN	411
pvac	245
pvca	507
Pviz	251
pwalign	8205
PWMEnrich	495
pwOmics	204
pwrEWAS	42
qckitfastq	122
qcmetrics	317
QDNAseq	636
QFeatures	3461
qmtools	183
qpcrNorm	234
qpgraph	470
qPLEXanalyzer	210
qrqc	139
QRscore	133
qsea	244
qsmooth	255
QSutils	260
qsvaR	166
QTLExperiment	155
Qtlizer	200
QUALIFIER	107
quantiseqr	890
quantro	441
quantsmooth	805
QuartPAC	108
QuasR	655
QuaternaryProd	189
QUBIC	264
qusage	553
qvalue	23222
R3CPET	248
r3Cseq	312
R453Plus1Toolbox	257
R4RNA	868
RadioGx	211
raer	173
RaggedExperiment	1025
RAIDS	136
rain	286
rama	115
RamiGO	51
ramr	180
ramwas	292
RandomWalkRestartMH	88
randPack	232
randRotation	156
RankProd	507
RAREsim	151
RareVariantVis	254
Rariant	135
Rarr	349
rawDiag	134
rawrr	298
RbcBook1	450
Rbec	132
RBGL	9640
RBioFormats	377
RBioinf	209
rBiopaxParser	533
rBLAST	284
RBM	219
Rbowtie	593
Rbowtie2	473
RbowtieCuda	75
rbsurv	240
Rbwa	146
Rcade	205
RCAS	294
RCASPAR	164
rcellminer	281
rCGH	427
Rchemcpp	111
RchyOptimyx	67
RcisTarget	1592
RCM	235
Rcollectl	85
Rcpi	322
RCSL	167
Rcwl	229
RcwlPipelines	169
RCX	175
RCy3	1100
RCyjs	261
RCytoscape	54
RDAVIDWebService	116
Rdbi	35
RdbiPgSQL	16
rDGIdb	91
Rdisop	797
RDRToolbox	304
ReactomeContentService4R	57
ReactomeGraph4R	29
ReactomeGSA	348
ReactomePA	4521
readat	50
ReadqPCR	330
reb	146
REBET	181
rebook	238
receptLoss	116
reconsi	157
recount	591
recount3	652
recountmethylation	217
recoup	337
RedeR	453
RedisParam	144
REDseq	258
ReducedExperiment	146
RefNet	76
RefPlus	208
RegEnrich	297
regionalpcs	114
RegionalST	137
regioneR	2234
regioneReloaded	169
regionReport	368
regsplice	207
regutools	199
REMP	240
Repitools	429
ReportingTools	843
reposTools	10
RepViz	161
ReQON	155
ResidualMatrix	4422
RESOLVE	148
Resourcerer	42
restfulSE	120
retrofit	152
ReUseData	137
rexposome	294
rfaRm	184
Rfastp	226
RFLOMICS	122
rflowcyt	75
rfPred	267
rGADEM	429
RGalaxy	92
rGenomeTracks	157
Rgin	36
RGMQL	56
RgnTX	147
rgoslin	247
RGraph2js	234
Rgraphviz	10190
rGREAT	904
RGSEA	245
rgsepd	246
rhdf5	25337
rhdf5client	269
rhdf5filters	24419
Rhdf5lib	26047
rhinotypeR	127
Rhisat2	279
Rhtslib	25663
rHVDM	125
RiboCrypt	192
RiboDiPA	198
RiboProfiling	260
ribor	189
riboSeqR	284
ribosomeProfilingQC	219
rifi	145
rifiComparative	141
Rigraphlib	978
rigvf	122
RImmPort	172
Ringo	327
Rintact	28
RIPAT	56
RIPSeeker	107
Risa	203
RITAN	176
RIVER	244
RJMCMCNucleosomes	208
RLassoCox	154
RLMM	205
RLSeq	49
RMAGEML	16
Rmagpie	226
RMAPPER	28
RMassBank	397
rMAT	76
rmelting	188
RmiR	83
Rmmquant	202
rmspc	184
RNAAgeCalc	244
RNAdecay	145
rnaEditr	188
RNAinteract	105
RNAither	132
RNAmodR	206
RNAmodR.AlkAnilineSeq	181
RNAmodR.ML	214
RNAmodR.RiboMethSeq	175
RNAprobR	61
RNAsense	187
rnaseqcomp	250
RNAseqCovarImpute	141
rnaSeqMap	160
RNASeqPower	346
RNASeqR	45
RnaSeqSampleSize	276
RnBeads	551
Rnits	231
roar	278
roastgsa	153
ROC	1368
ROCpAI	161
RolDE	171
Roleswitch	71
Rolexa	67
rols	666
ROntoTools	395
ropls	1763
ROSeq	210
ROTS	451
RPA	295
rprimer	184
RProtoBufLib	2752
RpsiXML	210
rpx	642
Rqc	482
rqt	176
rqubic	228
rRDP	245
Rredland	21
RRHO	242
rrvgo	763
Rsamtools	27792
rsbml	293
rScudo	212
rsemmed	158
RSeqAn	194
rSFFreader	84
RSNPper	22
Rsubread	2311
RSVSim	291
rSWeeP	197
rTANDEM	95
RTCA	214
RTCGA	649
RTCGAToolbox	690
RTN	401
RTNduals	206
RTNsurvival	221
RTools4TB	7
RTopper	309
Rtpca	206
rtracklayer	22588
Rtreemix	189
rTRM	344
rTRMui	235
RUCova	142
runibic	167
Ruuid	39
RUVcorr	208
RUVnormalize	268
RUVSeq	1120
Rvisdiff	160
RVS	193
RWebServices	18
rWikiPathways	558
S4Arrays	47470
S4Vectors	62138
safe	744
SAGElyzer	16
sagenhaft	234
SAGx	127
SAIGEgds	208
samExploreR	31
sampleClassifier	175
SamSPECTRAL	298
sangeranalyseR	358
sangerseqR	779
SanityR	54
SANTA	241
sapFinder	76
saps	17
SARC	126
sarks	178
saseR	140
satuRn	470
savR	48
SBGNview	259
sbgr	7
SBMLR	247
SC3	613
scafari	67
Scale4C	219
ScaledMatrix	13890
scAlign	78
scanMiR	204
scanMiRApp	172
scAnnotatR	197
SCAN.UPC	339
SCANVIS	200
SCArray	203
SCArray.sat	134
SCATE	34
scater	8377
scatterHatch	142
scBFA	193
SCBN	169
scBubbletree	177
scCB2	177
scClassifR	22
scClassify	264
sccomp	235
scDataviz	197
scDblFinder	2772
scDD	390
scDDboost	161
scde	612
scDesign3	182
scDiagnostics	143
scDotPlot	175
scds	657
SCFA	178
scFeatureFilter	199
scFeatures	178
scfind	26
scGPS	213
scGraphVerse	39
schex	264
scHiCcompare	134
scHOT	222
scider	173
scifer	173
ScISI	176
scLANE	39
scMAGeCK	29
scmap	524
scMerge	525
scMET	173
scmeth	213
scMitoMut	138
scMultiSim	174
SCnorm	289
scone	354
Sconify	189
SCOPE	222
scoreInvHap	209
scoup	124
scp	333
scPCA	245
scPipe	296
scQTLtools	101
scran	6064
scrapper	1052
scReClassify	220
scRecover	226
screenCounter	155
ScreenR	129
scRepertoire	836
scRNAseqApp	178
scruff	223
scry	495
scShapes	146
scsR	76
scTensor	200
scTGIF	226
scTHI	185
scTreeViz	171
scuttle	10294
scviR	125
SDAMS	180
seahtrue	160
sechm	270
segmenter	168
segmentSeq	329
selectKSigs	156
SELEX	244
SemDist	247
semisup	170
SemSim	21
SEPA	30
SEPIRA	103
seq2pathway	200
seqArchR	164
seqArchRplus	130
SeqArray	1172
seqbias	151
seqCAT	208
seqCNA	98
seqcombo	155
SeqGate	174
SeqGSEA	304
seq.hotSPOT	137
Seqinfo	16770
seqLogo	3754
seqPattern	1028
seqplots	101
seqsetvis	278
SeqSQC	250
seqTools	221
SeqVarTools	707
SEraster	130
sesame	973
SETA	45
SEtools	206
sevenbridges	255
sevenC	238
SGCP	193
SGSeq	510
SharedObject	281
shinybiocloader	53
shinyDSP	138
shinyepico	195
shiny.gosling	115
shinyMethyl	291
shinyTANDEM	54
ShortRead	6785
SIAMCAT	301
SICtools	243
sigaR	93
SigCheck	240
sigFeature	425
SigFuge	248
siggenes	3457
sights	203
signatureSearch	298
signeR	262
signet	20
signifinder	174
sigPathway	132
SigsPack	198
sigsquared	203
SIM	250
SIMAT	216
SimBindProfiles	122
SimBu	190
SIMD	166
SimFFPE	159
similaRpeak	242
SIMLR	368
simona	846
simPIC	135
simpleaffy	179
simpleSeg	283
simplifyEnrichment	1332
simulatorAPMS	21
simulatorZ	98
sincell	270
singIST	2
single	88
SingleCellAlleleExperiment	148
SingleCellExperiment	19486
SingleCellSignalR	389
singleCellTK	452
SingleMoleculeFootprinting	174
SingleR	5345
singscore	1877
SiPSiC	137
SISPA	74
sitadela	169
Site2Target	113
sitePath	233
sizepower	227
SJava	15
sketchR	141
skewr	221
slalom	177
SLGI	144
slingshot	2562
slinky	58
SLqPCR	209
SMAD	160
SMAP	116
smartid	132
SmartPhos	21
SMITE	244
smoothclust	137
smoppix	118
SNAGEE	236
snapCGH	210
snapcount	181
snifter	471
snm	291
SNPchip	170
SNPediaR	181
SNPhood	296
snpMatrix	26
SNPRelate	2263
snpStats	2519
soGGi	505
sojourner	48
SomatiCA	55
SomaticSignatures	327
SOMNiBUS	149
sosta	161
SpaceMarkers	139
SpacePAC	169
SpaceTrooper	86
spacexr	355
spade	48
Spaniel	209
SpaNorm	176
spARI	49
sparrow	453
SparseArray	51505
sparseDOSSA	63
sparseMatrixStats	17130
sparsenetgls	159
SparseSignatures	233
spaSim	172
SpatialCPie	201
spatialDE	223
SpatialDecon	299
SpatialExperiment	7209
SpatialExperimentIO	180
spatialFDA	170
SpatialFeatureExperiment	343
spatialHeatmap	200
SpatialOmicsOverlay	154
spatialSimGP	119
spatzie	144
speckle	400
specL	252
SpeCond	261
Spectra	3241
SpectralTAD	234
SpectraQL	130
SpectriPy	52
SPEM	220
SPIA	901
SPIAT	228
SPICEY	49
spicyR	365
SpidermiR	92
spikeLI	229
spiky	179
spillR	131
spkTools	228
splatter	660
splicegear	103
spliceR	97
spliceSites	59
SpliceWiz	237
SplicingFactory	159
SplicingGraphs	313
SplineDV	139
splineTCDiffExpr	3
splineTimeR	236
SPLINTER	225
splots	296
SPONGE	232
spoon	129
SpotClean	204
SPOTlight	452
spotSegmentation	47
SpotSweeper	232
spqn	197
SPsimSeq	217
SQLDataFrame	164
SQUADD	72
squallms	128
sRACIPE	233
SRAdb	577
sRAP	62
SRGnet	33
srnadiff	204
sscore	160
sscu	221
sSeq	302
ssize	245
sSNAPPY	185
SSPA	202
ssPATHS	183
ssrch	182
ssviz	232
StabMap	131
STADyUM	43
stageR	430
stam	26
STAN	109
standR	286
staRank	102
StarBioTrek	87
staRgate	9
Starr	140
STATegRa	319
StatescopeR	4
Statial	233
statTarget	298
STdeconvolve	86
stepNorm	235
stepwiseCM	50
stJoincount	170
stPipe	55
strandCheckR	200
Streamer	247
STRINGdb	2716
STROMA4	138
struct	328
Structstrings	224
structToolbox	250
StructuralVariantAnnotation	346
SubCellBarCode	190
subSeq	277
SUITOR	152
SummarizedBenchmark	133
SummarizedExperiment	47265
Summix	143
SuperCellCyto	52
supersigs	221
supraHex	309
surfaltr	209
SurfR	140
survClust	125
survcomp	1847
survtype	177
Sushi	184
sva	8955
svaNUMT	161
SVAPLSseq	62
svaRetro	158
SVM2CRM	66
SVMDO	159
SVP	146
SWATH2stats	214
SwathXtend	172
swfdr	252
SwimR	58
switchBox	220
switchde	219
synapsis	174
synapter	241
synergyfinder	367
SynExtend	220
synlet	193
SynMut	178
syntenet	274
systemPipeR	1597
systemPipeShiny	197
systemPipeTools	172
tadar	156
TADCompare	229
tanggle	212
TAPseq	202
target	211
TargetDecoy	191
TargetScore	227
TargetSearch	230
TarSeqQC	112
TaxSEA	127
TBSignatureProfiler	230
TCC	483
TCGAbiolinks	5796
TCGAbiolinksGUI	66
TCGAutils	821
TCseq	758
TDARACNE	92
TDbasedUFE	158
TDbasedUFEadv	199
TEKRABber	171
TENET	120
TENxIO	264
tenXplore	220
TEQC	296
terapadog	141
ternarynet	194
terraTCGAdata	151
TFARM	182
TFBSTools	3631
TFEA.ChIP	280
TFHAZ	235
TFutils	235
tidybulk	420
tidyCoverage	155
tidyexposomics	9
tidyFlowCore	120
tidyomics	158
tidyprint	0
tidysbml	135
tidySingleCellExperiment	440
tidySpatialExperiment	174
tidySummarizedExperiment	353
tidytof	93
tigre	279
TileDBArray	185
tilingArray	364
timecourse	388
timeOmics	229
timescape	173
TimeSeriesExperiment	66
TimiRGeN	56
TIN	267
TissueEnrich	350
TitanCNA	209
tkWidgets	1794
tLOH	167
TMixClust	198
TMSig	131
TNBC.CMS	57
TnT	234
TOAST	676
tofsims	67
tomoda	164
tomoseqr	169
TOP	151
ToPASeq	68
topconfects	297
topdownr	241
topGO	2679
toppgene	0
ToxicoGx	216
TPP	321
TPP2D	194
tpSVG	129
tracktables	391
trackViewer	873
tradeSeq	1069
TrajectoryGeometry	141
TrajectoryUtils	2702
transcriptogramer	238
transcriptR	258
transformGamPoi	193
transite	212
tRanslatome	277
transmogR	134
transomics2cytoscape	184
TransView	271
TraRe	30
traseR	267
Travel	5
traviz	74
TreeAndLeaf	246
treeclimbR	141
treeio	27014
treekoR	216
TreeSummarizedExperiment	2493
TREG	186
trena	121
TReNA	5
Trendy	233
TRESS	202
tricycle	437
TrIdent	115
triform	66
trigger	172
trio	291
triplex	336
tripr	191
tRNA	267
tRNAdbImport	214
tRNAscanImport	207
TRONCO	361
TSAR	126
TSCAN	680
tscR	43
tspair	100
TSRchitect	118
TSSi	75
ttgsea	154
TTMap	239
TurboNorm	283
TVTB	281
tweeDEseq	298
twilight	353
twoddpcr	227
txcutr	167
txdbmaker	5911
tximeta	1579
tximport	4579
TxRegInfra	25
TypeInfo	113
UCell	1908
UCSC.utils	39117
Ularcirc	243
UMI4Cats	210
uncoverappLib	182
UNDO	246
unifiedWMWqPCR	204
UniProt.ws	918
Uniquorn	245
universalmotif	1382
updateObject	166
UPDhmm	133
uSORT	266
VAExprs	157
VanillaICE	433
VarCon	200
variancePartition	1607
VariantAnnotation	9427
VariantExperiment	123
VariantFiltering	284
VariantTools	306
vasp	17
VaSP	226
vbmp	287
VCFArray	235
VDJdive	161
Vega	58
VegaMC	289
velociraptor	275
veloviz	146
VennDetail	343
VERSO	163
vidger	238
viper	1195
virtualArray	17
ViSEAGO	295
VisiumIO	242
visiumStitched	132
vissE	238
vmrseq	112
Voyager	292
VplotR	222
vsclust	171
vsn	6134
vtpnet	261
vulcan	172
waddR	136
wateRmelon	1006
wavClusteR	246
waveTiling	104
weaver	214
webbioc	297
weitrix	230
widgetInvoke	11
widgetTools	1748
wiggleplotr	294
wpm	192
wppi	144
Wrench	2013
XAItest	116
XBSeq	150
xCell2	202
XCIR	13
xcms	2111
xcore	172
XDE	352
XeniumIO	127
xenLite	127
Xeva	206
XINA	197
xmapbridge	209
xmapcore	14
XNAString	124
xps	82
XVector	57497
y2hStat	20
yamss	285
YAPSA	297
yaqcaffy	197
yarn	294
zellkonverter	2891
zenith	248
zFPKM	220
zinbwave	911
zitools	130
zlibbioc	30002
ZygosityPredictor	152