Package	Download_score
a4	202
a4Base	211
a4Classif	189
a4Core	228
a4Preproc	223
a4Reporting	188
ABAEnrichment	55
ABarray	195
abseqR	166
ABSSeq	245
acde	197
ACE	186
aCGH	275
ACME	267
ADaCGH2	199
ADAM	174
ADAMgui	156
ADAPT	71
adaptest	17
adductomicsR	154
ADImpute	174
adSplit	188
adverSCarial	119
AffiXcan	168
affxparser	1747
affy	7970
affycomp	230
AffyCompatible	83
affyContam	188
affycoretools	452
AffyExpress	54
affyILM	174
affyio	8149
affylmGUI	222
affyPara	53
affypdnn	72
affyPLM	993
affyQCReport	56
AffyRNADegradation	180
AffyTiling	36
AGDEX	178
aggregateBioVar	173
Agi4x44PreProcess	32
agilp	181
AgiMicroRna	279
AHMassBank	120
AIMS	406
airpart	148
alabaster	131
alabaster.base	4022
alabaster.bumpy	130
alabaster.files	116
alabaster.mae	135
alabaster.matrix	3812
alabaster.ranges	3719
alabaster.sce	1225
alabaster.schemas	3645
alabaster.se	3691
alabaster.sfe	54
alabaster.spatial	135
alabaster.string	128
alabaster.vcf	124
ALDEx2	1360
alevinQC	178
AllelicImbalance	198
AlphaBeta	172
AlphaMissenseR	140
alpine	51
ALPS	17
AlpsNMR	195
alsace	59
altcdfenvs	196
AMARETTO	196
AMOUNTAIN	188
amplican	182
ampliQueso	41
AnalysisPageServer	40
anamiR	17
Anaquin	150
ANCOMBC	1475
AneuFinder	176
ANF	157
animalcules	223
annaffy	340
AnnBuilder	10
annmap	185
annotate	17478
AnnotationDbi	38174
AnnotationFilter	10892
AnnotationForge	1837
AnnotationFuncs	43
AnnotationHub	11557
AnnotationHubData	360
annotationTools	203
annotatr	580
anota	192
anota2seq	210
antiProfiles	164
AnVIL	586
AnVILAz	113
AnVILBase	393
AnVILBilling	139
AnVILGCP	127
AnVILPublish	134
AnVILWorkflow	125
APAlyzer	182
apComplex	189
apeglm	4310
APL	154
applera	3
appreci8R	161
aroma.light	1739
ArrayExpress	459
ArrayExpressHTS	45
arrayMagic	14
arrayMvout	170
arrayQCplot	6
arrayQuality	300
arrayQualityMetrics	527
ArrayTools	55
ArrayTV	47
ARRmNormalization	170
artMS	197
ASAFE	142
ASEB	161
ASGSCA	171
ASICS	194
asmn	4
ASpediaFI	35
ASpli	217
AssessORF	187
ASSET	192
ASSIGN	222
assorthead	11741
ASURAT	159
ATACCoGAPS	26
ATACseqQC	473
ATACseqTFEA	147
atena	159
AtlasRDF	19
atSNP	168
attract	215
AUCell	2972
autonomics	161
Autotuner	18
AWAggregator	8
AWFisher	165
awst	141
BaalChIP	203
BAC	68
bacon	264
BADER	169
BadRegionFinder	148
BAGS	164
ballgown	845
bambu	373
bamsignals	1034
BANDITS	169
bandle	153
Banksy	366
banocc	166
barbieQ	72
barcodetrackR	155
basecallQC	181
BaseSpaceR	168
Basic4Cseq	170
BASiCS	251
BASiCStan	134
BasicSTARRseq	147
basilisk	3444
basilisk.utils	3288
batchCorr	16
batchelor	4103
BatchQC	240
BatchSVG	90
BayesKnockdown	151
BayesPeak	62
BayesSpace	409
bayNorm	189
baySeq	500
BBCAnalyzer	185
BCRANK	242
bcSeq	151
BDMMAcorrect	40
beachmat	16227
beachmat.hdf5	184
beachmat.tiledb	76
beadarray	653
beadarraySNP	82
BeadDataPackR	589
BeadExplorer	8
BEARscc	45
BEAT	188
BEclear	177
bedbaser	68
beer	141
benchdamic	113
BERT	112
betaHMM	117
betr	36
bettr	126
BG2	125
bgafun	44
BgeeCall	172
BgeeDB	184
BGmix	60
bgx	115
BHC	72
BicARE	204
BiFET	162
BiGGR	164
bigmelon	183
bigmemoryExtras	36
bigPint	51
bim	5
BindingSiteFinder	150
bioassayR	179
Biobase	52459
biobroom	288
biobtreeR	125
bioCancer	174
BioCartaImage	121
BiocBaseUtils	7148
BiocBook	143
BiocCaseStudies	57
BiocCheck	1615
biocDatasets	5
BiocDockerManager	23
BiocFHIR	137
BiocFileCache	26420
BiocGenerics	60977
Bioc.gff	1
biocGraph	241
BiocHail	73
BiocHubsShiny	154
BiocInstaller	134
BiocIO	19546
biocmake	378
BiocNeighbors	11367
BiocOncoTK	60
BioCor	183
BiocParallel	50668
BiocPkgTools	262
biocroxytest	110
BiocSet	419
BiocSingular	12969
BiocSklearn	215
BiocStyle	5826
biocthis	294
BiocVersion	64228
biocViews	4364
BiocWorkflowTools	235
biodb	211
biodbChebi	153
biodbExpasy	27
biodbHmdb	143
biodbKegg	46
biodbLipidmaps	23
biodbMirbase	18
biodbNcbi	144
biodbNci	124
biodbUniprot	130
bioDist	321
BioGA	109
biomaRt	21599
BioMedR	7
biomformat	5877
BioMM	40
BioMVCClass	184
biomvRCNS	183
BioNAR	157
BioNERO	275
BioNet	348
BioNetStat	52
BioQC	226
BioSeqClass	63
biosigner	171
Biostrings	48945
biosvd	40
BioTIP	179
biotmle	163
biovizBase	5102
BiRewire	267
birta	43
birte	26
biscuiteer	161
BiSeq	235
BitSeq	79
blacksheepr	168
blima	167
BLMA	164
BloodGen3Module	160
bluster	6289
bnbc	182
bnem	140
BOBaFIT	146
borealis	125
BPRMeth	204
BRAIN	232
brainflowprobes	40
brainImageR	10
BrainSABER	26
BrainStars	41
branchpointer	182
breakpointR	159
BreastSubtypeR	82
brendaDb	148
BREW3R.r	119
BRGenomics	73
bridge	60
BridgeDbR	202
broadSeq	116
BrowserViz	217
BrowserVizDemo	15
BSgenome	12219
BSgenomeForge	239
bsseq	1386
BubbleTree	193
BufferedMatrix	173
BufferedMatrixMethods	173
bugsigdbr	608
BulkSignalR	102
BUMHMM	157
bumphunter	2438
BumpyMatrix	495
BUS	204
BUScorrect	169
BUSpaRse	275
BUSseq	151
CaDrA	125
CAEN	138
CAFE	183
CAGEfightR	266
cageminer	154
CAGEr	295
CALIB	70
calm	128
CAMERA	527
CAMTHC	15
CaMutQC	116
canceR	192
cancerclass	445
CancerInSilico	50
CancerMutationAnalysis	62
CancerSubtypes	99
CAnD	41
caOmicsV	44
cardelino	151
Cardinal	352
CardinalIO	229
CARDspa	99
CARNIVAL	268
casper	171
CATALYST	530
Category	1281
categoryCompare	199
CatsCradle	121
CausalR	174
cbaf	153
CBEA	53
cBioPortalData	453
CBNplot	170
cbpManager	152
CCAFE	90
ccfindR	168
ccImpute	140
ccmap	165
CCPlotR	148
CCPROMISE	164
ccrepe	214
CDI	125
celaref	149
celda	845
CellaRepertorium	43
CellBarcode	161
cellbaseR	161
CellBench	221
cellGrowth	35
cellHTS	63
cellHTS2	152
CelliD	284
cellity	180
CellMapper	148
cellmig	4
cellmigRation	141
CellMixS	207
CellNOptR	255
cellscape	138
CellScore	130
CellTrails	183
cellTree	51
cellxgenedp	160
CEMiTool	264
censcyt	126
Cepo	194
ceRNAnetsim	139
CeTF	177
CexoR	196
CFAssay	150
cfdnakit	138
cfDNAPro	157
cfTools	129
CGEN	182
CGHbase	432
CGHcall	405
cghMCR	228
CGHnormaliter	192
CGHregions	176
ChAMP	762
CHARGE	13
charm	46
ChemmineOB	375
ChemmineR	869
CHETAH	207
chevreulPlot	82
chevreulProcess	87
chevreulShiny	71
ChIC	30
Chicago	196
chihaya	203
chimera	54
chimeraviz	197
ChIPanalyser	184
ChIPComp	164
chipenrich	226
ChIPexoQual	169
ChIPpeakAnno	973
ChIPQC	428
ChIPseeker	2225
chipseq	623
ChIPseqR	216
ChIPSeqSpike	27
ChIPsim	184
ChIPXpress	153
chopsticks	204
chroGPS	56
Chromatograms	0
chromDraw	175
ChromHeatMap	199
ChromoViz	7
chromPlot	220
ChromSCape	143
chromstaR	99
chromswitch	48
chromVAR	1238
CHRONOS	163
cicero	350
CIMICE	140
CINdex	176
circRNAprofiler	178
CircSeqAlignTk	123
cisPath	140
CiteFuse	170
ClassifyR	367
cleanUpdTSeq	209
CleanUpRNAseq	116
cleaver	303
clevRvis	138
clippda	187
clipper	194
cliProfiler	136
cliqueMS	174
Clomial	173
Clonality	73
clonotypeR	43
clst	198
clstutils	194
CluMSID	137
ClustAll	122
clustComp	157
clusterExperiment	387
ClusterFoldSimilarity	123
ClusterJudge	159
clusterProfiler	22186
clusterSeq	156
ClusterSignificance	170
clusterStab	184
clustifyr	258
ClustIRR	130
clustSIGNAL	81
CMA	260
cmapR	537
CNAnorm	183
CNEr	2772
cn.farms	178
cn.mops	282
CNORdt	163
CNORfeeder	177
CNORfuzzy	175
CNORode	185
CNPBayes	30
CNTools	258
CNVfilteR	128
CNVgears	36
cnvGSA	164
CNViz	112
CNVMetrics	150
CNVPanelizer	170
CNVRanger	193
CNVrd2	179
CNVtools	42
cobindR	51
CoCiteStats	173
COCOA	187
codelink	235
CODEX	234
coexnet	37
CoGAPS	337
cogena	218
cogeqc	158
Cogito	145
coGPS	193
COHCAP	65
cola	252
comapr	134
combi	144
coMET	103
coMethDMR	152
compartmap	52
COMPASS	218
compcodeR	221
compEpiTools	164
CompGO	35
ComplexHeatmap	17694
CompoundDb	317
ComPrAn	129
compSPOT	109
conclus	24
concordexR	139
condcomp	5
condiments	199
CONFESS	157
consensus	150
ConsensusClusterPlus	2908
consensusDE	157
consensusOV	169
consensusSeekeR	173
consICA	151
CONSTANd	149
contiBAIT	51
conumee	279
convert	220
copa	186
COPDSexualDimorphism	6
copynumber	148
CopyNumber450k	22
CopyNumberPlots	172
CopywriteR	56
Coralysis	50
coRdon	308
CoRegFlux	13
CoRegNet	82
CoreGx	336
Cormotif	192
CorMut	38
coRNAi	48
corral	183
CORREP	57
coseq	225
CoSIA	118
cosmiq	177
cosmo	20
cosmoGUI	14
cosmosR	197
COSNet	160
COTAN	179
CountClust	39
countsimQC	208
covEB	149
CoverageView	181
covRNA	138
CPSM	77
cpvSNP	185
cqn	353
CRImage	217
CRISPRball	113
crisprBase	201
crisprBowtie	169
crisprBwa	115
crisprDesign	188
crisprScore	205
CRISPRseek	251
crisprseekplus	32
crisprShiny	115
CrispRVariants	214
crisprVerse	143
crisprViz	154
crlmm	292
CrossICC	7
crossmeta	95
crumblr	75
crupR	75
CSAR	202
csaw	522
csdR	135
CSOA	2
CSSP	44
CSSQ	127
ctc	321
CTdata	128
CTDquerier	160
CTexploreR	116
ctgGEM	18
cTRAP	178
ctsGE	160
CTSV	132
cummeRbund	351
CuratedAtlasQueryR	140
customCMPdb	128
customProDB	180
CVE	20
cyanoFilter	144
cycle	178
cydar	200
cypress	130
CytoDx	154
cytofast	15
cytofkit	41
CyTOFpower	66
cytofQC	128
CytoGLMM	141
cytoKernel	141
cytolib	2481
cytomapper	412
CytoMDS	116
cytoMEM	171
CytoML	504
CytoPipeline	143
CytoPipelineGUI	116
CytoTree	35
cytoviewer	164
dada2	2628
dagLogo	197
daMA	204
DAMEfinder	168
DaMiRseq	191
Damsel	125
dandelionR	95
DAPAR	229
dar	107
DART	204
DASC	3
DASiR	26
dasper	31
DAVIDQuery	32
DBChIP	60
dcanr	263
DCATS	138
dce	82
dcGSA	149
DChIPRep	38
ddCt	228
ddgraph	33
ddPCRclust	181
dearseq	204
debCAM	169
debrowser	219
DECIPHER	2959
deco	40
DEComplexDisease	49
decompTumor2Sig	179
DeconRNASeq	376
decontam	1649
decontX	414
DeconvoBuddies	77
deconvR	160
decoupleR	1599
DEDS	69
DeeDeeExperiment	10
DeepBlueR	54
DeepPINCS	146
deepSNV	253
DeepTarget	113
DEFormats	295
DegCre	135
DegNorm	150
DEGraph	147
DEGreport	641
DEGseq	312
DelayedArray	44314
DelayedDataFrame	141
DelayedMatrixStats	16210
DelayedRandomArray	145
DelayedTensor	142
DELocal	132
deltaCaptureC	129
deltaGseg	175
DeMAND	148
DeMixT	183
demuxmix	254
demuxSNP	124
densvis	833
DEP	753
DepecheR	179
DepInfeR	141
DeProViR	22
DEqMS	378
derfinder	560
derfinderHelper	545
derfinderPlot	211
DEScan2	161
DESeq	196
DESeq2	23906
DEsingle	330
DESpace	144
destiny	827
DEsubs	181
DEWSeq	162
DExMA	141
DEXSeq	1509
dexus	60
DFP	173
DFplyr	99
DIAlignR	55
DiffBind	1184
diffcoexp	188
diffcyt	418
DifferentialRegulation	146
diffGeneAnalysis	170
diffHic	227
DiffLogo	190
diffloop	73
diffuStats	180
diffUTR	131
diggit	153
Dino	152
dinoR	122
Director	91
dir.expiry	3693
DirichletMultinomial	4430
discordant	195
DiscoRhythm	175
distinct	248
dittoSeq	1330
divergence	151
dks	155
DMCFB	148
DMCHMM	150
dmGsea	25
DMRcaller	215
DMRcate	1045
DMRforPairs	73
DMRScan	142
dmrseq	268
DNABarcodeCompatibility	128
DNABarcodes	246
DNAcopy	4281
DNAcycP2	82
DNAfusion	147
DNaseR	8
DNAshapeR	215
DNEA	39
domainsignatures	37
DominoEffect	136
dominoSignal	113
doppelgangR	177
DOQTL	38
Doscheda	161
DOSE	21980
doseR	161
doubletrouble	159
dpeak	34
drawProteins	267
dreamlet	179
DRIMSeq	361
DriverNet	192
DropletUtils	2450
drugTargetInteractions	136
DrugVsDisease	170
dSimer	17
DSS	703
dStruct	122
DTA	184
dualKS	54
Dune	146
DupChecker	25
DuplexDiscovereR	107
dupRadar	223
dyebias	208
DynDoc	1479
easier	180
EasyCellType	157
easylift	128
EasyqpcR	60
easyreporting	154
easyRNASeq	223
EBarrays	250
EBcoexpress	189
EBImage	2931
EBSEA	148
EBSeq	472
EBSeqHMM	78
ecolitk	208
EDASeq	1586
edd	17
EDDA	49
edge	219
edgeR	25058
EDIRquery	130
eds	325
eegc	55
EGAD	186
EGSEA	253
eiR	163
eisa	72
eisaR	206
ELBOW	48
ELMER	302
ELViS	83
EMDomics	198
EmpiricalBrownsMethod	185
ENCODExplorer	46
EnhancedVolcano	6466
enhancerHomologSearch	140
EnMCB	143
ENmix	396
EnrichDO	122
EnrichedHeatmap	755
EnrichmentBrowser	520
enrichplot	22227
enrichTF	49
enrichViewNet	127
ensembldb	9440
ensemblVEP	97
ENVISIONQuery	43
epialleleR	157
EpiCompare	139
epidecodeR	144
EpiDISH	753
epigenomix	177
epigraHMM	152
epihet	23
EpiMix	145
epimutacions	141
epiNEM	177
EpipwR	114
epiregulon	114
epiregulon.extra	127
epistack	152
epistasisGA	133
EpiTxDb	167
epivizr	208
epivizrChart	163
epivizrData	162
epivizrServer	163
epivizrStandalone	160
erccdashboard	195
erma	177
ERSSA	161
esATAC	171
escape	449
escheR	174
esetVis	174
eudysbiome	182
evaluomeR	147
EventPointer	190
EWCE	273
ExCluster	139
ExiMiR	202
exomeCopy	179
exomePeak	47
exomePeak2	102
exonmap	13
ExperimentHub	8180
ExperimentHubData	316
ExperimentSubset	144
explorase	51
ExploreModelMatrix	308
ExpressionAtlas	216
ExpressionView	67
exprExternal	2
externalVector	14
extraChIPs	154
fabia	269
facopy	25
factDesign	180
factR	134
faers	159
FamAgg	185
famat	147
farms	76
fastLiquidAssociation	154
FastqCleaner	192
fastreeR	162
fastseg	846
fbat	12
FCBF	66
fCCAC	170
fCI	181
fcoex	47
fcScan	152
fdrame	169
FEAST	246
FeatSeekR	116
fedup	145
FELLA	247
FEM	45
fenr	132
ffpe	177
fgga	140
FGNet	195
fgsea	24216
FilterFFPE	148
findIPs	116
FindIT2	167
FindMyFriends	45
FinfoMDS	3
FISHalyseR	146
fishpond	358
FitHiC	184
flagme	162
FLAMES	162
flipflop	34
flowAI	576
flowBeads	172
flowBin	153
flowcatchR	197
flowCHIC	180
flowCL	43
flowClean	296
flowClust	774
flowCore	2534
flowCut	203
flowCyBar	144
flowDensity	359
flowFit	35
flowFlowJo	35
flowFP	249
flowGate	155
flowGraph	148
flowMap	73
flowMatch	182
flowMeans	235
flowMerge	195
flowPeaks	273
flowPhyto	27
flowPloidy	163
flowPlots	156
flowQ	53
flowQB	39
FlowRepositoryR	32
FlowSOM	1051
flowSpecs	169
flowSpy	13
flowStats	533
flowTime	180
flowTrans	203
flowType	58
flowUtils	89
flowViz	932
flowVS	221
flowWorkspace	1187
fmcsR	305
fmrs	168
fobitools	150
focalCall	30
FoldGO	40
FourCSeq	47
FRASER	233
frenchFISH	120
FRGEpistasis	146
frma	222
frmaTools	188
FScanR	18
FunChIP	59
FunciSNP	56
funOmics	116
funtooNorm	160
FuseSOM	146
G4SNVHunter	116
GA4GHclient	144
GA4GHshiny	136
gaga	191
gage	820
gaggle	76
gaia	61
GAPGOM	31
GAprediction	137
garfield	146
GARS	148
GateFinder	137
gatom	152
gaucho	23
GBScleanR	147
gcapc	179
gcatest	178
gCMAP	49
gCMAPWeb	47
GCPtools	25
gCrisprTools	198
gcrma	1109
GCSConnection	14
GCSFilesystem	10
GCSscore	39
GDCRNATools	281
gDNAx	120
gDR	108
gDRcore	122
gDRimport	124
gDRstyle	120
gDRutils	118
GDSArray	208
gdsfmt	2254
GeDi	111
geecc	40
GEM	151
gemini	143
gemma.R	161
genArise	178
genbankr	99
gene2pathway	15
GeneAccord	41
GeneAnswers	96
geneAttribution	180
GeneBreak	175
geneClassifiers	165
GENE.E	27
GeneExpressionSignature	209
genefilter	11826
genefu	388
GeneGA	143
GeneGeneInteR	122
GeneGroupAnalysis	13
GeneMeta	237
GeneNetworkBuilder	218
GeneOverlap	810
geneplast	191
geneplotter	3976
GeneR	18
geneRecommender	179
GeneRegionScan	211
GeneRfold	7
geneRxCluster	168
GeneSelectMMD	174
GeneSelector	47
GENESIS	488
GeneSpring	13
GeneStructureTools	171
geNetClassifier	213
GeneticsBase	15
GeneticsDesign	43
GeneticsPed	211
GeneTonic	283
GeneTraffic	12
GeneTS	7
geneXtendeR	174
GENIE3	1537
genoCN	132
GenoGAM	34
genomation	753
GenomAutomorphism	142
GenomeBase	1
GenomeGraphs	67
GenomeInfoDb	58497
genomeIntervals	237
genomes	176
GenomicAlignments	22860
GenomicDataCommons	987
GenomicDistributions	202
GenomicFeatures	17343
GenomicFiles	1026
genomicInstability	160
GenomicInteractionNodes	130
GenomicInteractions	400
GenomicOZone	143
GenomicPlot	148
GenomicRanges	47248
GenomicScores	632
GenomicSuperSignature	167
GenomicTuples	171
Genominator	60
genoset	57
genotypeeval	39
GenoView	20
genphen	23
GenProSeq	134
GenRank	15
GenVisR	352
GeoDiff	141
GEOexplorer	160
GEOfastq	151
GEOmetadb	341
geomeTriD	112
GeomxTools	424
GEOquery	10476
GEOsearch	15
GEOsubmission	176
GeoTcgaData	181
gep2pep	152
gespeR	81
getDEE2	145
geva	150
GEWIST	148
geyser	95
gff3Plotter	3
gg4way	128
GGBase	61
ggbio	1963
ggcyto	865
ggkegg	522
ggmanh	228
ggmsa	622
GGPA	148
ggsc	172
ggseqalign	99
ggspavis	311
GGtools	85
ggtree	24706
ggtreeDendro	137
ggtreeExtra	1376
ggtreeSpace	110
GIGSEA	164
ginmappeR	110
gINTomics	127
girafe	209
GISPA	42
GLAD	284
GladiaTOX	153
Glimma	1026
glmGamPoi	5572
glmSparseNet	230
GlobalAncova	1032
globalSeq	153
globaltest	1625
GloScope	125
gmapR	218
GmicR	159
gmoviz	158
GMRP	141
GNET2	147
GNOSIS	117
goatea	2
goCluster	6
GOexpress	225
GOfuncR	331
GOFunction	49
GoogleGenomics	21
GOpro	180
goProfiles	209
GOSemSim	20265
goseq	1472
GOSim	101
goSorensen	133
goSTAG	191
GOstats	1227
GOsummaries	87
GOTHiC	196
goTools	193
GPA	136
gpart	32
gpls	229
gprege	64
gpuMagic	109
gQTLBase	31
gQTLstats	42
GrafGen	117
gramm4R	10
GRaNIE	151
granulator	209
graper	147
graph	20194
GraphAlignment	163
GraphAT	217
graphite	3689
GraphPAC	81
GRENITS	167
GreyListChIP	1066
GRmetrics	195
groHMM	173
GRridge	50
GSALightning	146
GSAR	208
GSCA	189
gscreend	161
GSEABase	9126
GSEABenchmarkeR	169
GSEAlm	215
GSEAmining	172
gsean	178
GSgalgoR	151
GSReg	163
GSRI	168
GSVA	7365
gtrellis	253
GUIDEseq	194
Guitar	275
gVenn	2
Gviz	3172
GWAS.BAYES	148
gwascat	582
GWASTools	698
gwasurvivr	160
GWENA	222
gypsum	3563
h5mread	4221
h5vc	201
hapFabia	199
Harman	253
HarmonizR	155
Harshlight	147
hca	142
HCABrowser	9
HCAExplorer	7
HCAMatrixBrowser	4
HCsnip	39
HDF5Array	14926
HDTD	156
hdxmsqc	110
heatmaps	319
Heatplus	411
HelloRanges	200
HELP	190
HEM	184
hermes	251
HERON	126
Herper	182
hexbin	60
HGC	144
hiAnnotator	200
HIBAG	252
HicAggR	120
HiCaptuRe	6
HiCBricks	224
HiCcompare	346
HiCDCPlus	168
HiCDOC	150
HiCExperiment	202
HiContacts	198
HiCool	122
HiCParser	69
HiCPotts	12
hicrep	14
hicVennDiagram	133
hierGWAS	153
hierinf	127
HilbertCurve	205
HilbertVis	236
HilbertVisGUI	114
HiLDA	162
hipathia	228
HIPPO	146
hiReadsProcessor	182
HIREewas	138
HiTC	274
hmdbQuery	159
HMMcopy	438
HoloFoodR	109
hoodscanR	172
hopach	357
HPAanalyze	263
hpar	341
HPAStainR	16
HPiP	151
HTqPCR	203
HTSanalyzeR	61
HTSeqGenie	40
htSeqTools	57
HTSFilter	279
HuBMAPR	105
HubPub	214
HumanTranscriptomeCompendium	57
hummingbird	130
HVP	24
HybridExpress	121
HybridMTest	205
hypeR	195
hyperdraw	190
hypergraph	218
iASeq	150
iasva	174
iBBiG	210
ibh	163
iBMQ	141
iCARE	175
Icens	409
icetea	152
iCheck	155
iChip	201
iClusterPlus	451
iCNV	153
iCOBRA	331
ideal	186
IdeoViz	184
idiogram	201
IdMappingAnalysis	58
IdMappingRetrieval	38
idpr	162
idr2d	177
IFAA	119
iFlow	13
igblastr	31
iGC	172
IgGeneUsage	155
igvR	211
igvShiny	143
IHW	780
illuminaio	2612
ILoReg	167
imageHTS	85
imageTCGA	65
IMAS	135
imcRtools	290
Imetagene	41
IMMAN	145
immApex	130
ImmuneSpaceR	69
immunoClust	173
immunogenViewer	84
immunotation	162
IMPCdata	146
ImpulseDE	12
ImpulseDE2	20
impute	10968
INDEED	132
iNETgrate	127
infercnv	1424
infinityFlow	149
Informeasure	128
InPAS	189
INPower	172
inSilicoDb	29
inSilicoMerging	32
INSPEcT	188
INTACT	122
InTAD	158
intansv	181
interacCircos	132
InteractionSet	1639
InteractiveComplexHeatmap	480
interactiveDisplay	220
interactiveDisplayBase	3335
InterCellar	168
IntEREst	161
InterMineR	78
IntOMICS	16
IntramiRExploreR	160
inveRsion	45
IONiseR	198
iontree	27
iPAC	88
iPath	134
ipdDb	157
IPO	206
IPPD	56
IRanges	57185
IRISFGM	31
IrisSpatialFeatures	8
ISAnalytics	146
iSEE	547
iSEEde	143
iSEEfier	125
iSEEhex	156
iSEEhub	166
iSEEindex	127
iSEEpathways	128
iSEEtree	140
iSEEu	205
iSeq	176
ISLET	141
islify	68
iSNetwork	6
isobar	226
IsoBayes	131
IsoCorrectoR	194
IsoCorrectoRGUI	129
IsoformSwitchAnalyzeR	385
IsoGeneGUI	78
ISoLDE	148
isomiRs	186
iSPlot	10
ITALICS	163
iterativeBMA	181
iterativeBMAsurv	159
iterClust	31
iteremoval	20
IVAS	168
ivygapSE	167
IWTomics	183
jazzPanda	78
jmosaics	33
joda	41
JunctionSeq	27
karyoploteR	892
katdetectr	131
KBoost	122
KCsmart	200
kebabs	243
KEGGgraph	5547
KEGGlincs	169
keggorth	7
keggorthology	216
KEGGprofile	50
KEGGREST	38078
KEGGSOAP	23
kimod	17
KinSwingR	152
kissDE	136
kmcut	112
KnowSeq	174
knowYourCG	128
koinar	112
LACE	170
lapmix	95
LBE	254
ldblock	198
LEA	780
LedPred	162
lefser	589
lemur	156
les	171
levi	141
lfa	350
Lheuristic	61
limma	36975
limmaGUI	211
limpa	80
limpca	120
LimROTS	74
LINC	22
LineagePulse	39
lineagespot	128
LinkHD	161
linkSet	10
Linnorm	243
LinTInd	133
lionessR	185
lipidr	232
LipidTrend	31
LiquidAssociation	167
lisaClust	233
lmdme	171
LMGene	49
LOBSTAHS	143
loci2path	137
logicFS	189
logitT	66
Logolas	19
lol	33
LOLA	288
LoomExperiment	660
LowMACA	47
LPE	195
LPEadj	81
lpNet	163
lpsymphony	949
LRBaseDbi	137
LRcell	140
lumi	1141
lute	115
LVSmiRNA	41
LymphoSeq	176
M3C	616
M3D	30
M3Drop	487
m6Aboost	120
maanova	99
Maaslin2	1019
maaslin3	165
Macarron	123
macat	92
maCorrPlot	186
MACPET	32
MACSQuantifyR	134
MACSr	160
maDB	25
made4	338
MADSEQ	138
maftools	2612
MAGAR	135
MAGeCKFlute	285
magpie	139
magrene	135
MAI	138
maigesPack	98
MAIT	181
makecdfenv	283
makePlatformDesign	11
MANOR	198
manta	55
MantelCorr	159
MAPFX	115
mAPKL	60
maPredictDSC	160
mapscape	148
mariner	126
marr	137
marray	1776
martini	161
maser	213
maSigPro	446
maskBAD	182
MassArray	161
massiR	206
MassSpecWavelet	1713
MAST	2095
mastR	159
matchBox	154
matchprobes	17
MatrixGenerics	44489
MatrixQCvis	177
MatrixRider	158
matter	326
MaxContrastProjection	22
MBAmethyl	144
MBASED	197
MBCB	174
MBECS	139
mbkmeans	428
mbOmic	11
mBPCR	175
MBQN	163
mbQTL	117
MBttest	171
mcaGUI	55
MCbiclust	181
MCRestimate	48
mCSEA	190
mdgsa	44
mdp	195
mdqc	189
MDTS	141
MEAL	190
MeasurementError.cor	163
MEAT	154
MEB	158
MEDIPS	252
MEDME	172
megadepth	212
MEIGOR	189
Melissa	161
memes	294
MergeMaid	57
Mergeomics	183
MeSHDbi	258
meshes	249
meshr	206
MeSHSim	22
MesKit	189
messina	162
metaArray	56
Metab	86
metabCombiner	209
metabinR	131
MetaboAnnotation	263
MetaboCoreUtils	2065
MetaboDynamics	93
metabolomicsWorkbenchR	177
metabomxtr	154
MetaboSignal	209
metaCCA	164
MetaCyto	170
metagene	85
metagene2	175
metagenomeFeatures	42
metagenomeSeq	1727
metahdep	164
metaMS	207
MetaNeighbor	225
MetaPhOR	139
metapod	5113
metapone	149
metaSeq	192
metaseqR	54
metaseqR2	180
metavizr	39
MetaVolcanoR	66
metaX	19
MetCirc	178
MethCP	27
methimpute	170
methInheritSim	148
methodical	102
MethPed	164
MethReg	154
methrix	205
MethTargetedNGS	153
methVisual	41
methyAnalysis	63
MethylAid	194
methylCC	171
methylclock	274
methylGSA	205
methyLImp2	131
methylInheritance	169
methylKit	812
MethylMix	221
methylMnM	198
methylPipe	176
methylscaper	151
MethylSeekR	278
methylSig	171
methylumi	1429
methyvim	12
MetID	163
MetMashR	91
MetNet	175
mfa	167
Mfuzz	1396
MGFM	173
MGFR	164
MGnifyR	147
mgsa	207
mia	1469
miaDash	79
miaSim	152
miaTime	10
miaViz	388
MiChip	172
microbiome	2023
microbiomeDASim	144
microbiomeExplorer	155
microbiomeMarker	383
MicrobiomeProfiler	190
MicrobiotaProcess	525
microRNA	326
microSTASIS	132
MICSQTL	127
midasHLA	146
MIGSA	53
miloR	630
mimager	146
MIMOSA	69
mina	127
MineICA	206
minet	668
minfi	2223
MinimumDistance	191
MiPP	175
miQC	217
MIRA	191
MiRaGE	198
miRBaseConverter	290
miRcomp	178
mirIntegrator	176
MIRit	122
miRLAB	170
miRmine	53
miRNAmeConverter	157
miRNApath	162
miRNAtap	231
miRSM	162
miRsponge	7
miRspongeR	152
Mirsynergy	33
mirTarRnaSeq	156
missMethyl	1128
missRows	148
mist	66
mistyR	226
mitch	171
mitoClone2	148
mitology	94
mitoODE	30
mixOmics	3267
MLInterfaces	432
mlm4omics	8
MLP	212
MLSeq	227
MMAPPR2	19
MMDiff	34
MMDiff2	171
mmgmos	3
mmnet	28
MmPalateMiRNA	56
MMUPHin	263
mnem	181
moanin	159
mobileRNA	118
MobilityTransformR	13
MODA	158
ModCon	137
Modstrings	180
MOFA	15
MOFA2	776
MOGAMUN	148
mogsa	287
MoleculeExperiment	146
MOMA	163
monaLisa	246
monocle	3377
Moonlight2R	132
MoonlightR	187
MoPS	34
mosaics	267
mosbi	150
MOSClip	108
mosdef	333
MOSim	167
Motif2Site	143
motifbreakR	284
motifcounter	151
MotifDb	654
motifmatchr	1367
MotifPeeker	94
motifRG	56
motifStack	731
motifTestR	127
MotIV	64
MouseFM	149
MPAC	107
MPFE	141
mpra	196
MPRAnalyze	162
MQmetrics	25
mQTL.NMR	35
msa	2201
MSA2dist	172
MsBackendMassbank	162
MsBackendMetaboLights	117
MsBackendMgf	501
MsBackendMsp	333
MsBackendRawFileReader	157
MsBackendSql	135
MsCoreUtils	3489
MsDataHub	176
MSEADbi	5
MsExperiment	1302
MsFeatures	1375
msgbsR	155
MSGFgui	56
MSGFplus	40
msImpute	213
mslp	108
msmsEDA	307
msmsTests	327
MSnbase	3241
MSnID	330
mspms	100
MSPrep	147
msPurity	198
msqrob2	235
MsQuality	141
MSstats	633
MSstatsBig	126
MSstatsBioNet	77
MSstatsConvert	554
MSstatsLiP	149
MSstatsLOBD	126
MSstatsPTM	283
MSstatsQC	167
MSstatsQCgui	131
MSstatsSampleSize	43
MSstatsShiny	169
MSstatsTMT	342
MSstatsTMTPTM	7
MTseeker	9
MuData	156
Mulcom	197
MultiAssayExperiment	6218
MultiBaC	166
multiClust	190
multicrispr	149
MultiDataSet	1311
multiGSEA	195
multiHiCcompare	212
MultiMed	156
multiMiR	468
MultimodalExperiment	131
multiOmicsViz	61
MultiRNAflow	133
multiscan	173
multiSight	26
multistateQTL	110
multiWGCNA	169
multtest	11557
mumosa	151
MungeSumstats	782
muscat	572
muscle	447
musicatk	158
MutationalPatterns	400
mutscan	4
MVCClass	206
mvGST	31
MWASTools	199
mygene	413
myvariant	196
mzID	3075
mzR	3386
NADfinder	158
NanoMethViz	183
NanoStringDiff	185
NanoStringNCTools	406
NanoStringQCPro	61
nanotatoR	34
NanoTube	173
NarrowPeaks	41
NBAMSeq	152
NBSplice	34
ncdfFlow	1111
ncGTW	154
NCIgraph	127
ncRNAtools	137
ndexr	154
neaGUI	26
nearBynding	161
Nebulosa	1269
NeighborNet	42
nem	83
nempi	135
NetActivity	121
netbenchmark	27
netbiov	81
netboost	144
netboxr	31
netDx	47
nethet	163
netOmics	49
NetPathMiner	191
netprioR	133
netReg	19
netresponse	189
NetSAM	182
netSmooth	175
networkBMA	72
netZooR	89
NeuCA	45
NewWave	178
NGScopy	38
ngsReports	190
nipalsMCIA	137
nnNorm	203
nnSVG	210
NOISeq	595
nondetects	117
NoRCE	143
normalize450K	156
NormalyzerDE	268
NormqPCR	259
normr	225
NPARC	166
npGSEA	164
NTW	156
nucleoSim	155
nucleR	224
nuCpos	153
nudge	58
nullranges	260
NuPoP	205
NxtIRFcore	37
occugene	157
OCplus	201
octad	126
ODER	19
odseq	157
OGRE	137
OGSA	37
oligo	2439
oligoClasses	1716
OLIN	219
OLINgui	178
omada	120
OmaDB	217
omicade4	231
OmicCircos	295
omicplotR	164
omicRexposome	172
OmicsLonDA	43
OmicsMarkeR	25
OmicsMLRepoR	96
OMICsPCA	194
omicsPrint	169
omicsViewer	155
Omixer	159
OmnipathR	1010
ompBAM	179
omXplore	127
Onassis	33
oncomix	164
oncoscanR	145
OncoScore	141
OncoSimulR	208
oneChannelGUI	68
oneSENSE	43
onlineFDR	126
ontoCAT	48
ontoProc	240
ontoTools	27
openCyto	684
openPrimeR	192
openPrimeRui	59
OpenStats	120
OperaMate	20
oposSOM	214
oppar	169
oppti	103
optimalFlow	147
OPWeight	151
OrderedList	201
ORFhunteR	154
ORFik	288
OrganismDbi	2614
Organism.dplyr	391
orthogene	537
orthos	136
OSAT	184
Oscope	187
OSTA.data	92
OTUbase	166
OutlierD	50
OUTRIDER	288
OutSplice	137
OVESEG	144
PAA	206
packFinder	164
padma	163
PADOG	292
pageRank	139
PAIRADISE	183
paircompviz	163
pairedGSEA	109
pairkat	133
pairseqsim	2
pamr	31
pandaR	224
panelcn.mops	157
PAnnBuilder	45
PanomiR	135
panp	188
PANR	189
PanViz	34
PanVizGenerator	39
PAPi	42
pareg	34
parglms	153
parody	178
partCNV	126
PAST	149
Path2PPI	184
pathifier	205
pathlinkR	157
pathMED	50
PathNet	180
PathoStat	170
pathprint	19
pathRender	174
pathVar	58
pathview	4825
pathwayPCA	193
PathwaySplice	18
PatientGeneSets	9
paxtoolsr	85
Pbase	41
pbcmc	12
pcaExplorer	394
pcaGoPromoter	38
pcaMethods	5229
PCAN	174
PCAtools	1242
pcot2	75
PCpheno	64
pcxn	38
PDATK	150
pdInfoBuilder	214
pdmclass	46
PeacoQC	310
peakPantheR	146
PECA	197
peco	159
Pedixplorer	123
pengls	131
PepSetTest	102
PepsNMR	186
pepStat	169
pepXMLTab	165
PERFect	31
periodicDNA	160
perturbatr	25
pfamAnalyzeR	310
PFP	23
PGA	38
pgca	130
PGSEA	102
pgUtils	16
pgxRpi	118
phantasus	195
phantasusLite	127
PharmacoGx	342
phemd	38
phenoDist	33
PhenoGeneRanker	129
phenomis	143
phenopath	195
phenoTest	211
PhenStat	179
philr	261
PhIPData	157
phosphonormalizer	141
PhosR	228
PhyloProfile	187
phyloseq	5868
Pi	60
piano	458
PICB	85
pickgene	156
PICS	165
Pigengene	192
PING	148
pint	37
pipeComp	174
pipeFrame	204
PIPETS	115
Pirat	99
PIUMA	115
pkgDepTools	78
planet	271
planttfhunter	125
plasmut	119
plateCore	62
plethy	64
plgem	218
plier	237
PloGO2	40
plotgardener	287
plotGrouper	131
PLPE	175
plrs	41
PLSDAbatch	127
plw	56
plyinteractions	127
plyranges	1122
plyxp	108
pmm	132
pmp	212
PoDCall	120
podkat	186
poem	73
pogos	170
polyester	143
Polyfit	30
PolySTest	102
Polytect	102
POMA	223
POST	14
PoTRA	18
PowerExplorer	16
powerTCR	364
POWSC	135
ppcseq	147
PPInfer	202
ppiStats	98
pqsfinder	221
prada	57
pram	151
prebs	172
preciseTAD	168
PrecisionTrialDrawer	27
PREDA	199
predictionet	57
preprocessCore	14893
primirTSS	144
PrInCE	157
Prize	22
proActiv	181
proBAMr	150
proBatch	37
PROcess	213
procoil	206
ProCoNA	37
proDA	313
proFIA	57
profileplyr	328
profileScoreDist	132
progeny	616
projectR	184
pRoloc	368
pRolocGUI	219
PROMISE	186
PRONE	124
PROPER	217
PROPS	151
Prostar	196
prot2D	24
proteasy	28
proteinProfiles	141
ProteoDisco	127
ProteomicsAnnotationHubData	31
ProteoMM	172
proteoQC	41
protGear	140
ProtGenerics	11276
PSEA	70
psichomics	190
PSICQUIC	58
PSMatch	2459
psygenet2r	75
ptairMS	142
PubScore	26
pulsedSilac	24
puma	219
PureCN	280
pvac	169
pvca	354
Pviz	168
pwalign	7307
PWMEnrich	287
pwOmics	94
pwrEWAS	27
qckitfastq	121
qcmetrics	189
QDNAseq	419
QFeatures	2856
qmtools	145
qpcrNorm	168
qpgraph	264
qPLEXanalyzer	175
qrqc	74
QRscore	84
qsea	166
qsmooth	197
QSutils	215
qsvaR	154
QTLExperiment	129
Qtlizer	150
QUALIFIER	45
quantiseqr	723
quantro	258
quantsmooth	680
QuartPAC	62
QuasR	399
QuaternaryProd	169
QUBIC	204
qusage	451
qvalue	20777
R3CPET	158
r3Cseq	203
R453Plus1Toolbox	200
R4RNA	709
RadioGx	155
raer	127
RaggedExperiment	766
RAIDS	129
rain	220
rama	60
RamiGO	31
ramr	147
ramwas	196
RandomWalkRestartMH	72
randPack	163
randRotation	130
RankProd	335
RAREsim	128
RareVariantVis	192
Rariant	48
Rarr	253
rawDiag	117
rawrr	252
RbcBook1	286
Rbec	122
RBGL	8899
RBioFormats	322
RBioinf	177
rBiopaxParser	253
rBLAST	267
RBM	162
Rbowtie	474
Rbowtie2	364
RbowtieCuda	44
rbsurv	186
Rbwa	123
Rcade	87
RCAS	198
RCASPAR	146
rcellminer	203
rCGH	210
Rchemcpp	40
RchyOptimyx	47
RcisTarget	1377
RCM	159
Rcollectl	74
Rcpi	229
RCSL	148
Rcwl	145
RcwlPipelines	131
RCX	149
RCy3	886
RCyjs	183
RCytoscape	40
RDAVIDWebService	70
Rdbi	16
RdbiPgSQL	11
rDGIdb	72
Rdisop	548
RDRToolbox	212
ReactomeContentService4R	65
ReactomeGraph4R	26
ReactomeGSA	295
ReactomePA	3469
readat	20
ReadqPCR	263
reb	57
REBET	140
rebook	210
receptLoss	128
reconsi	130
recount	457
recount3	430
recountmethylation	158
recoup	175
RedeR	353
RedisParam	124
REDseq	179
ReducedExperiment	97
RefNet	30
RefPlus	93
RegEnrich	166
regionalpcs	119
RegionalST	104
regioneR	1875
regioneReloaded	138
regionReport	251
regsplice	140
regutools	150
REMP	168
Repitools	355
ReportingTools	608
reposTools	2
RepViz	145
ReQON	81
ResidualMatrix	3969
RESOLVE	128
Resourcerer	26
restfulSE	72
retrofit	129
ReUseData	111
rexposome	209
rfaRm	138
Rfastp	220
RFLOMICS	71
rflowcyt	24
rfPred	185
rGADEM	395
RGalaxy	48
rGenomeTracks	140
Rgin	25
RGMQL	37
RgnTX	138
rgoslin	201
RGraph2js	168
Rgraphviz	9049
rGREAT	698
RGSEA	189
rgsepd	173
rhdf5	22885
rhdf5client	188
rhdf5filters	22014
Rhdf5lib	23687
rhinotypeR	107
Rhisat2	240
Rhtslib	24034
rHVDM	69
RiboCrypt	117
RiboDiPA	165
RiboProfiling	194
ribor	159
riboSeqR	202
ribosomeProfilingQC	171
rifi	119
rifiComparative	120
Rigraphlib	395
rigvf	73
RImmPort	146
Ringo	176
Rintact	13
RIPAT	36
RIPSeeker	63
Risa	128
RITAN	125
RIVER	173
RJMCMCNucleosomes	146
RLassoCox	138
RLMM	170
RLSeq	34
RMAGEML	10
Rmagpie	169
RMAPPER	16
RMassBank	246
rMAT	44
rmelting	162
RmiR	50
Rmmquant	151
rmspc	135
RNAAgeCalc	184
RNAdecay	135
rnaEditr	147
RNAinteract	71
RNAither	64
RNAmodR	157
RNAmodR.AlkAnilineSeq	138
RNAmodR.ML	161
RNAmodR.RiboMethSeq	129
RNAprobR	32
RNAsense	143
rnaseqcomp	176
RNAseqCovarImpute	111
rnaSeqMap	51
RNASeqPower	295
RNASeqR	26
RnaSeqSampleSize	196
RnBeads	383
Rnits	154
roar	181
roastgsa	124
ROC	1088
ROCpAI	129
RolDE	150
Roleswitch	36
Rolexa	32
rols	416
ROntoTools	257
ropls	1374
ROSeq	171
ROTS	324
RPA	179
rprimer	155
RProtoBufLib	2365
RpsiXML	88
rpx	348
Rqc	368
rqt	132
rqubic	177
rRDP	180
Rredland	13
RRHO	203
rrvgo	590
Rsamtools	24393
rsbml	215
rScudo	153
rsemmed	135
RSeqAn	173
rSFFreader	42
RSNPper	8
Rsubread	2092
RSVSim	185
rSWeeP	145
rTANDEM	54
RTCA	173
RTCGA	452
RTCGAToolbox	534
RTN	291
RTNduals	152
RTNsurvival	155
RTools4TB	6
RTopper	206
Rtpca	148
rtracklayer	20455
Rtreemix	149
rTRM	195
rTRMui	169
RUCova	81
runibic	134
Ruuid	17
RUVcorr	164
RUVnormalize	180
RUVSeq	944
Rvisdiff	118
RVS	143
RWebServices	27
rWikiPathways	451
S4Arrays	42660
S4Vectors	56898
safe	558
SAGElyzer	6
sagenhaft	193
SAGx	56
SAIGEgds	180
samExploreR	15
sampleClassifier	139
SamSPECTRAL	224
sangeranalyseR	308
sangerseqR	719
SanityR	13
SANTA	183
sapFinder	42
saps	17
SARC	136
sarks	133
saseR	106
satuRn	365
savR	42
SBGNview	219
sbgr	11
SBMLR	178
SC3	426
scafari	17
Scale4C	175
ScaledMatrix	12836
scAlign	25
scanMiR	157
scanMiRApp	133
scAnnotatR	185
SCAN.UPC	201
SCANVIS	161
SCArray	160
SCArray.sat	127
SCATE	24
scater	7211
scatterHatch	127
scBFA	153
SCBN	143
scBubbletree	145
scCB2	129
scClassifR	14
scClassify	198
sccomp	193
scDataviz	167
scDblFinder	2112
scDD	233
scDDboost	125
scde	488
scDesign3	154
scDiagnostics	122
scDotPlot	146
scds	469
SCFA	151
scFeatureFilter	160
scFeatures	139
scfind	18
scGPS	153
schex	223
scHiCcompare	87
scHOT	174
scider	131
scifer	138
ScISI	82
scMAGeCK	25
scmap	355
scMerge	415
scMET	150
scmeth	147
scMitoMut	115
scMultiSim	147
SCnorm	209
scone	222
Sconify	157
SCOPE	159
scoreInvHap	172
scoup	101
scp	272
scPCA	186
scPipe	207
scQTLtools	80
scran	5090
scrapper	468
scReClassify	145
scRecover	172
screenCounter	117
ScreenR	132
scRepertoire	768
scRNAseqApp	140
scruff	164
scry	374
scShapes	126
scsR	45
scTensor	151
scTGIF	168
scTHI	132
scTreeViz	133
scuttle	9306
scviR	109
SDAMS	154
seahtrue	106
sechm	246
segmenter	137
segmentSeq	223
selectKSigs	129
SELEX	174
SemDist	187
semisup	143
SemSim	6
SEPA	22
SEPIRA	48
seq2pathway	215
seqArchR	136
seqArchRplus	131
SeqArray	970
seqbias	80
seqCAT	159
seqCNA	76
seqcombo	132
SeqGate	135
SeqGSEA	232
seq.hotSPOT	117
Seqinfo	1249
seqLogo	3514
seqPattern	758
seqplots	50
seqsetvis	186
SeqSQC	174
seqTools	185
SeqVarTools	533
SEraster	78
sesame	771
SEtools	182
sevenbridges	181
sevenC	179
SGCP	144
SGSeq	382
SharedObject	199
shinybiocloader	2
shinyDSP	83
shinyepico	150
shiny.gosling	128
shinyMethyl	223
shinyTANDEM	36
ShortRead	6098
SIAMCAT	238
SICtools	172
sigaR	40
SigCheck	150
sigFeature	359
SigFuge	187
siggenes	2967
sights	165
signatureSearch	255
signeR	194
signet	8
signifinder	125
sigPathway	73
SigsPack	138
sigsquared	153
SIM	174
SIMAT	173
SimBindProfiles	83
SimBu	171
SIMD	137
SimFFPE	125
similaRpeak	182
SIMLR	239
simona	655
simPIC	114
simpleaffy	94
simpleSeg	209
simplifyEnrichment	1198
simulatorAPMS	14
simulatorZ	32
sincell	205
single	33
SingleCellAlleleExperiment	112
SingleCellExperiment	17660
SingleCellSignalR	283
singleCellTK	319
SingleMoleculeFootprinting	139
SingleR	4729
singscore	1572
SiPSiC	119
SISPA	46
sitadela	130
Site2Target	60
sitePath	172
sizepower	169
SJava	24
sketchR	114
skewr	149
slalom	143
SLGI	82
slingshot	1986
slinky	32
SLqPCR	173
SMAD	133
SMAP	85
smartid	113
SMITE	176
smoothclust	116
smoppix	79
SNAGEE	170
snapCGH	97
snapcount	143
snifter	259
snm	216
SNPchip	62
SNPediaR	138
SNPhood	195
snpMatrix	20
SNPRelate	2044
snpStats	2148
soGGi	456
sojourner	31
SomatiCA	36
SomaticSignatures	255
SOMNiBUS	124
sosta	101
SpaceMarkers	123
SpacePAC	102
SpaceTrooper	13
spacexr	189
spade	37
Spaniel	174
SpaNorm	137
spARI	7
sparrow	392
SparseArray	45743
sparseDOSSA	38
sparseMatrixStats	15707
sparsenetgls	127
SparseSignatures	180
spaSim	142
SpatialCPie	173
spatialDE	184
SpatialDecon	251
SpatialExperiment	6014
SpatialExperimentIO	102
spatialFDA	117
SpatialFeatureExperiment	304
spatialHeatmap	211
SpatialOmicsOverlay	121
spatialSimGP	94
spatzie	142
speckle	337
specL	188
SpeCond	215
Spectra	2216
SpectralTAD	188
SpectraQL	110
SpectriPy	12
SPEM	175
SPIA	627
SPIAT	206
SPICEY	2
spicyR	296
SpidermiR	48
spikeLI	155
spiky	139
spillR	112
spkTools	172
splatter	456
splicegear	52
spliceR	29
spliceSites	43
SpliceWiz	193
SplicingFactory	137
SplicingGraphs	235
SplineDV	101
splineTCDiffExpr	1
splineTimeR	184
SPLINTER	142
splots	222
SPONGE	172
spoon	111
SpotClean	178
SPOTlight	373
spotSegmentation	43
SpotSweeper	152
spqn	153
SPsimSeq	180
SQLDataFrame	143
SQUADD	59
squallms	103
sRACIPE	172
SRAdb	446
sRAP	48
SRGnet	17
srnadiff	146
sscore	68
sscu	165
sSeq	258
ssize	199
sSNAPPY	167
SSPA	142
ssPATHS	154
ssrch	152
ssviz	174
StabMap	106
stageR	307
stam	15
STAN	63
standR	214
staRank	70
StarBioTrek	49
Starr	68
STATegRa	186
Statial	163
statTarget	212
STdeconvolve	102
stepNorm	179
stepwiseCM	42
stJoincount	137
stPipe	3
strandCheckR	155
Streamer	171
STRINGdb	1889
STROMA4	31
struct	237
Structstrings	155
structToolbox	226
StructuralVariantAnnotation	266
SubCellBarCode	159
subSeq	185
SUITOR	123
SummarizedBenchmark	68
SummarizedExperiment	43318
Summix	127
supersigs	164
supraHex	233
surfaltr	143
SurfR	104
survClust	109
survcomp	1491
survtype	145
Sushi	113
sva	7658
svaNUMT	117
SVAPLSseq	12
svaRetro	132
SVM2CRM	25
SVMDO	132
SVP	88
SWATH2stats	169
SwathXtend	154
swfdr	183
SwimR	45
switchBox	191
switchde	166
synapsis	146
synapter	161
synergyfinder	337
SynExtend	172
synlet	168
SynMut	137
syntenet	188
systemPipeR	1309
systemPipeShiny	161
systemPipeTools	128
tadar	127
TADCompare	182
tanggle	159
TAPseq	157
target	154
TargetDecoy	154
TargetScore	181
TargetSearch	193
TarSeqQC	57
TaxSEA	72
TBSignatureProfiler	145
TCC	338
TCGAbiolinks	5167
TCGAbiolinksGUI	45
TCGAutils	643
TCseq	806
TDARACNE	52
TDbasedUFE	131
TDbasedUFEadv	134
TEKRABber	161
TENET	71
TENxIO	163
tenXplore	166
TEQC	184
terapadog	81
ternarynet	162
terraTCGAdata	124
TFARM	144
TFBSTools	3282
TFEA.ChIP	204
TFHAZ	165
TFutils	177
tidybulk	317
tidyCoverage	114
tidyFlowCore	102
tidyomics	137
tidysbml	112
tidySingleCellExperiment	319
tidySpatialExperiment	137
tidySummarizedExperiment	301
tidytof	113
tigre	185
TileDBArray	157
tilingArray	244
timecourse	196
timeOmics	186
timescape	152
TimeSeriesExperiment	40
TimiRGeN	34
TIN	188
TissueEnrich	279
TitanCNA	173
tkWidgets	1478
tLOH	139
TMixClust	153
TMSig	108
TNBC.CMS	43
TnT	157
TOAST	557
tofsims	28
tomoda	142
tomoseqr	143
TOP	115
ToPASeq	37
topconfects	243
topdownr	164
topGO	2564
ToxicoGx	161
TPP	231
TPP2D	158
tpSVG	111
tracktables	272
trackViewer	664
tradeSeq	758
TrajectoryGeometry	126
TrajectoryUtils	2164
transcriptogramer	166
transcriptR	188
transformGamPoi	150
transite	170
tRanslatome	196
transmogR	112
transomics2cytoscape	155
TransView	116
TraRe	21
traseR	176
Travel	5
traviz	65
TreeAndLeaf	197
treeclimbR	116
treeio	24212
treekoR	175
TreeSummarizedExperiment	2208
TREG	147
trena	72
TReNA	3
Trendy	155
TRESS	141
tricycle	354
TrIdent	82
triform	39
trigger	152
trio	222
triplex	194
tripr	148
tRNA	163
tRNAdbImport	148
tRNAscanImport	143
TRONCO	209
TSAR	110
TSCAN	589
tscR	28
tspair	66
TSRchitect	50
TSSi	38
ttgsea	131
TTMap	155
TurboNorm	189
TVTB	150
tweeDEseq	223
twilight	225
twoddpcr	172
txcutr	131
txdbmaker	5149
tximeta	1157
tximport	3801
TxRegInfra	13
TypeInfo	86
UCell	1678
UCSC.utils	43022
Ularcirc	159
UMI4Cats	154
uncoverappLib	143
UNDO	184
unifiedWMWqPCR	152
UniProt.ws	648
Uniquorn	180
universalmotif	1084
updateObject	133
UPDhmm	106
uSORT	155
VAExprs	132
VanillaICE	243
VarCon	152
variancePartition	1153
VariantAnnotation	8478
VariantExperiment	109
VariantFiltering	194
VariantTools	243
vasp	10
VaSP	155
vbmp	220
VCFArray	153
VDJdive	140
Vega	35
VegaMC	204
velociraptor	222
veloviz	132
VennDetail	310
VERSO	128
vidger	191
viper	876
virtualArray	14
ViSEAGO	184
VisiumIO	164
visiumStitched	96
vissE	208
vmrseq	62
Voyager	236
VplotR	160
vsclust	131
vsn	5160
vtpnet	183
vulcan	134
waddR	123
wateRmelon	863
wavClusteR	164
waveTiling	40
weaver	171
webbioc	185
weitrix	166
widgetInvoke	5
widgetTools	1478
wiggleplotr	232
wpm	167
wppi	130
Wrench	1711
XAItest	68
XBSeq	39
xCell2	109
XCIR	10
xcms	1602
xcore	137
XDE	213
XeniumIO	76
xenLite	104
Xeva	162
XINA	163
xmapbridge	185
xmapcore	10
XNAString	126
xps	67
XVector	52703
y2hStat	4
yamss	147
YAPSA	199
yaqcaffy	48
yarn	211
zellkonverter	2135
zenith	189
zFPKM	184
zinbwave	750
zitools	103
zlibbioc	41946
ZygosityPredictor	123