Package	Download_score
a4	179
a4Base	193
a4Classif	166
a4Core	198
a4Preproc	187
a4Reporting	167
ABAEnrichment	48
ABarray	181
abseqR	140
ABSSeq	205
acde	168
ACE	160
aCGH	241
ACME	224
ADaCGH2	174
ADAM	203
ADAMgui	136
ADAPT	44
adaptest	17
adductomicsR	131
ADImpute	146
adSplit	166
adverSCarial	97
AffiXcan	137
affxparser	1622
affy	7635
affycomp	213
AffyCompatible	85
affyContam	188
affycoretools	411
AffyExpress	58
affyILM	163
affyio	7768
affylmGUI	206
affyPara	58
affypdnn	73
affyPLM	927
affyQCReport	60
AffyRNADegradation	155
AffyTiling	42
AGDEX	155
aggregateBioVar	142
Agi4x44PreProcess	30
agilp	161
AgiMicroRna	248
AHMassBank	104
AIMS	354
airpart	133
alabaster	115
alabaster.base	3597
alabaster.bumpy	115
alabaster.files	93
alabaster.mae	118
alabaster.matrix	3558
alabaster.ranges	3423
alabaster.sce	1146
alabaster.schemas	3266
alabaster.se	3355
alabaster.sfe	28
alabaster.spatial	117
alabaster.string	113
alabaster.vcf	114
ALDEx2	1262
alevinQC	149
AllelicImbalance	173
AlphaBeta	136
AlphaMissenseR	116
alpine	39
ALPS	16
AlpsNMR	160
alsace	51
altcdfenvs	173
AMARETTO	222
AMOUNTAIN	152
amplican	156
ampliQueso	43
AnalysisPageServer	40
anamiR	17
Anaquin	127
ANCOMBC	1331
AneuFinder	159
ANF	131
animalcules	261
annaffy	304
AnnBuilder	11
annmap	155
annotate	16823
AnnotationDbi	37029
AnnotationFilter	10618
AnnotationForge	1817
AnnotationFuncs	45
AnnotationHub	10977
AnnotationHubData	318
annotationTools	178
annotatr	487
anota	159
anota2seq	158
antiProfiles	143
AnVIL	518
AnVILAz	86
AnVILBase	257
AnVILBilling	115
AnVILGCP	97
AnVILPublish	120
AnVILWorkflow	104
APAlyzer	153
apComplex	165
apeglm	3844
APL	186
applera	3
appreci8R	135
aroma.light	1737
ArrayExpress	423
ArrayExpressHTS	47
arrayMagic	14
arrayMvout	151
arrayQCplot	6
arrayQuality	255
arrayQualityMetrics	460
ArrayTools	54
ArrayTV	50
ARRmNormalization	157
artMS	154
ASAFE	118
ASEB	142
ASGSCA	148
ASICS	168
asmn	5
ASpediaFI	32
ASpli	170
AssessORF	214
ASSET	166
ASSIGN	186
assorthead	8089
ASURAT	130
ATACCoGAPS	39
ATACseqQC	401
ATACseqTFEA	121
atena	132
AtlasRDF	21
atSNP	145
attract	188
AUCell	2731
autonomics	132
Autotuner	15
AWFisher	137
awst	115
BaalChIP	168
BAC	58
bacon	210
BADER	148
BadRegionFinder	125
BAGS	153
ballgown	573
bambu	336
bamsignals	944
BANDITS	148
bandle	123
Banksy	296
banocc	142
barbieQ	33
barcodetrackR	129
basecallQC	151
BaseSpaceR	149
Basic4Cseq	153
BASiCS	184
BASiCStan	126
BasicSTARRseq	125
basilisk	3323
basilisk.utils	3219
batchelor	4013
BatchQC	193
BatchSVG	49
BayesKnockdown	125
BayesPeak	63
BayesSpace	327
bayNorm	153
baySeq	439
BBCAnalyzer	159
BCRANK	198
bcSeq	125
BDMMAcorrect	34
beachmat	15592
beachmat.hdf5	167
beachmat.tiledb	48
beadarray	646
beadarraySNP	78
BeadDataPackR	528
BeadExplorer	9
BEARscc	56
BEAT	164
BEclear	154
bedbaser	37
beer	117
benchdamic	109
BERT	94
betaHMM	96
betr	45
bettr	98
BG2	110
bgafun	49
BgeeCall	134
BgeeDB	155
BGmix	52
bgx	121
BHC	68
BicARE	178
BiFET	134
BiGGR	149
bigmelon	151
bigmemoryExtras	38
bigPint	39
bim	4
BindingSiteFinder	126
bioassayR	151
Biobase	50966
biobroom	258
biobtreeR	102
bioCancer	148
BioCartaImage	104
BiocBaseUtils	6719
BiocBook	122
BiocCaseStudies	54
BiocCheck	1573
biocDatasets	10
BiocDockerManager	16
BiocFHIR	117
BiocFileCache	24857
BiocGenerics	59091
biocGraph	274
BiocHail	63
BiocHubsShiny	137
BiocInstaller	149
BiocIO	19236
biocmake	137
BiocNeighbors	10937
BiocOncoTK	64
BioCor	153
BiocParallel	46637
BiocPkgTools	203
biocroxytest	89
BiocSet	407
BiocSingular	12692
BiocSklearn	181
BiocStyle	5383
biocthis	258
BiocVersion	61971
biocViews	4311
BiocWorkflowTools	203
biodb	166
biodbChebi	121
biodbExpasy	41
biodbHmdb	123
biodbKegg	61
biodbLipidmaps	27
biodbMirbase	15
biodbNcbi	118
biodbNci	117
biodbUniprot	107
bioDist	282
BioGA	81
biomaRt	21484
BioMedR	6
biomformat	5615
BioMM	35
BioMVCClass	169
biomvRCNS	156
BioNAR	136
BioNERO	260
BioNet	297
BioNetStat	57
BioQC	196
BioSeqClass	66
biosigner	163
Biostrings	47820
biosvd	46
BioTIP	153
biotmle	134
biovizBase	4873
BiRewire	238
birta	46
birte	27
biscuiteer	140
BiSeq	180
BitSeq	75
blacksheepr	146
blima	145
BLMA	142
BloodGen3Module	155
bluster	5750
bnbc	218
bnem	119
BOBaFIT	120
borealis	103
BPRMeth	163
BRAIN	215
brainflowprobes	41
brainImageR	9
BrainSABER	22
BrainStars	42
branchpointer	164
breakpointR	131
BreastSubtypeR	46
brendaDb	124
BREW3R.r	96
BRGenomics	55
bridge	57
BridgeDbR	165
broadSeq	90
BrowserViz	181
BrowserVizDemo	15
BSgenome	14909
BSgenomeForge	206
bsseq	1384
BubbleTree	174
BufferedMatrix	151
BufferedMatrixMethods	158
bugsigdbr	410
BulkSignalR	52
BUMHMM	140
bumphunter	2484
BumpyMatrix	389
BUS	179
BUScorrect	138
BUSpaRse	239
BUSseq	129
CaDrA	103
CAEN	114
CAFE	160
CAGEfightR	281
cageminer	124
CAGEr	306
CALIB	73
calm	102
CAMERA	482
CAMTHC	15
CaMutQC	95
canceR	174
cancerclass	451
CancerInSilico	41
CancerMutationAnalysis	63
CancerSubtypes	88
CAnD	35
caOmicsV	35
cardelino	126
Cardinal	304
CardinalIO	206
CARDspa	57
CARNIVAL	206
casper	149
CATALYST	539
Category	1296
categoryCompare	169
CatsCradle	83
CausalR	142
cbaf	126
CBEA	78
cBioPortalData	383
CBNplot	152
cbpManager	124
CCAFE	47
ccfindR	141
ccImpute	118
ccmap	147
CCPlotR	126
CCPROMISE	138
ccrepe	194
CDI	103
celaref	138
celda	790
CellaRepertorium	35
CellBarcode	134
cellbaseR	135
CellBench	188
cellGrowth	38
cellHTS	63
cellHTS2	144
CelliD	253
cellity	141
CellMapper	122
cellmigRation	118
CellMixS	150
CellNOptR	204
cellscape	117
CellScore	129
CellTrails	146
cellTree	41
cellxgenedp	134
CEMiTool	209
censcyt	106
Cepo	177
ceRNAnetsim	109
CeTF	140
CexoR	167
CFAssay	125
cfdnakit	111
cfDNAPro	148
cfTools	107
CGEN	152
CGHbase	374
CGHcall	342
cghMCR	211
CGHnormaliter	171
CGHregions	161
ChAMP	769
CHARGE	15
charm	53
ChemmineOB	341
ChemmineR	803
CHETAH	175
chevreulPlot	46
chevreulProcess	46
chevreulShiny	35
ChIC	29
Chicago	168
chihaya	194
chimera	57
chimeraviz	173
ChIPanalyser	151
ChIPComp	136
chipenrich	184
ChIPexoQual	142
ChIPpeakAnno	930
ChIPQC	371
ChIPseeker	2024
chipseq	571
ChIPseqR	190
ChIPSeqSpike	25
ChIPsim	162
ChIPXpress	128
chopsticks	181
chroGPS	60
chromDraw	153
ChromHeatMap	166
ChromoViz	8
chromPlot	247
ChromSCape	127
chromstaR	102
chromswitch	45
chromVAR	1169
CHRONOS	142
cicero	293
CIMICE	119
CINdex	149
circRNAprofiler	147
CircSeqAlignTk	101
cisPath	128
CiteFuse	148
ClassifyR	358
cleanUpdTSeq	169
CleanUpRNAseq	86
cleaver	263
clevRvis	124
clippda	172
clipper	163
cliProfiler	113
cliqueMS	154
Clomial	145
Clonality	62
clonotypeR	41
clst	171
clstutils	170
CluMSID	118
ClustAll	105
clustComp	135
clusterExperiment	331
ClusterFoldSimilarity	102
ClusterJudge	138
clusterProfiler	22133
clusterSeq	143
ClusterSignificance	139
clusterStab	170
clustifyr	221
ClustIRR	112
clustSIGNAL	43
CMA	234
cmapR	476
CNAnorm	160
CNEr	2972
cn.farms	162
cn.mops	243
CNORdt	142
CNORfeeder	159
CNORfuzzy	155
CNORode	153
CNPBayes	31
CNTools	208
CNVfilteR	103
CNVgears	39
cnvGSA	148
CNViz	96
CNVMetrics	123
CNVPanelizer	136
CNVRanger	155
CNVrd2	158
CNVtools	46
cobindR	55
CoCiteStats	155
COCOA	147
codelink	205
CODEX	189
coexnet	32
CoGAPS	351
cogena	178
cogeqc	136
Cogito	121
coGPS	169
COHCAP	47
cola	191
comapr	112
combi	136
coMET	95
coMethDMR	136
compartmap	49
COMPASS	179
compcodeR	178
compEpiTools	148
CompGO	33
ComplexHeatmap	16611
CompoundDb	277
ComPrAn	115
compSPOT	89
conclus	17
concordexR	124
condcomp	5
condiments	157
CONFESS	147
consensus	126
ConsensusClusterPlus	2874
consensusDE	125
consensusOV	150
consensusSeekeR	136
consICA	186
CONSTANd	122
contiBAIT	49
conumee	241
convert	193
copa	162
COPDSexualDimorphism	6
copynumber	134
CopyNumber450k	22
CopyNumberPlots	149
CopywriteR	46
Coralysis	21
coRdon	252
CoRegFlux	12
CoRegNet	70
CoreGx	263
Cormotif	160
CorMut	39
coRNAi	52
corral	143
CORREP	47
coseq	195
CoSIA	95
cosmiq	201
cosmo	20
cosmoGUI	16
cosmosR	158
COSNet	136
COTAN	160
CountClust	35
countsimQC	286
covEB	128
CoverageView	156
covRNA	119
CPSM	39
cpvSNP	158
cqn	323
CRImage	186
CRISPRball	106
crisprBase	170
crisprBowtie	147
crisprBwa	98
crisprDesign	159
crisprScore	173
CRISPRseek	192
crisprseekplus	33
crisprShiny	96
CrispRVariants	176
crisprVerse	133
crisprViz	135
crlmm	305
CrossICC	8
crossmeta	101
crumblr	38
crupR	36
CSAR	168
csaw	472
csdR	112
CSSP	38
CSSQ	108
ctc	279
CTdata	106
CTDquerier	136
CTexploreR	94
ctgGEM	15
cTRAP	145
ctsGE	138
CTSV	114
cummeRbund	303
CuratedAtlasQueryR	111
customCMPdb	122
customProDB	163
CVE	23
cyanoFilter	119
cycle	158
cydar	158
cypress	99
CytoDx	135
cytofast	16
cytofkit	41
CyTOFpower	49
cytofQC	115
CytoGLMM	114
cytoKernel	132
cytolib	2382
cytomapper	362
CytoMDS	94
cytoMEM	153
CytoML	456
CytoPipeline	128
CytoPipelineGUI	97
CytoTree	19
cytoviewer	142
dada2	2434
dagLogo	168
daMA	176
DAMEfinder	130
DaMiRseq	156
Damsel	97
dandelionR	57
DAPAR	186
dar	84
DART	176
DASC	3
DASiR	27
dasper	23
DAVIDQuery	32
DBChIP	62
dcanr	232
DCATS	130
dce	85
dcGSA	128
DChIPRep	39
ddCt	194
ddgraph	37
ddPCRclust	156
dearseq	229
debCAM	139
debrowser	181
DECIPHER	2788
deco	30
DEComplexDisease	40
decompTumor2Sig	155
DeconRNASeq	351
decontam	1592
decontX	339
DeconvoBuddies	36
deconvR	135
decoupleR	1395
DEDS	66
DeepBlueR	47
DeepPINCS	120
deepSNV	210
DeepTarget	85
DEFormats	250
DegCre	90
DegNorm	128
DEGraph	125
DEGreport	623
DEGseq	265
DelayedArray	42918
DelayedDataFrame	114
DelayedMatrixStats	15958
DelayedRandomArray	116
DelayedTensor	122
DELocal	121
deltaCaptureC	110
deltaGseg	146
DeMAND	123
DeMixT	151
demuxmix	260
demuxSNP	101
densvis	1101
DEP	655
DepecheR	151
DepInfeR	117
DeProViR	35
DEqMS	317
derfinder	510
derfinderHelper	496
derfinderPlot	170
DEScan2	136
DESeq	195
DESeq2	22334
DEsingle	297
DESpace	122
destiny	746
DEsubs	140
DEWSeq	134
DExMA	118
DEXSeq	1368
dexus	61
DFP	159
DFplyr	68
DIAlignR	55
DiffBind	1083
diffcoexp	170
diffcyt	420
DifferentialRegulation	124
diffGeneAnalysis	147
diffHic	190
DiffLogo	157
diffloop	47
diffuStats	151
diffUTR	105
diggit	133
Dino	120
dinoR	97
Director	85
dir.expiry	3400
DirichletMultinomial	4395
discordant	155
DiscoRhythm	148
distinct	261
dittoSeq	1294
divergence	127
dks	131
DMCFB	132
DMCHMM	121
dmGsea	3
DMRcaller	180
DMRcate	1091
DMRforPairs	68
DMRScan	120
dmrseq	222
DNABarcodeCompatibility	103
DNABarcodes	215
DNAcopy	4522
DNAcycP2	43
DNAfusion	122
DNaseR	8
DNAshapeR	170
DNEA	13
domainsignatures	40
DominoEffect	118
dominoSignal	79
doppelgangR	206
DOQTL	36
Doscheda	140
DOSE	21668
doseR	136
doubletrouble	130
dpeak	25
drawProteins	233
dreamlet	147
DRIMSeq	312
DriverNet	152
DropletUtils	2366
drugTargetInteractions	114
DrugVsDisease	159
dSimer	18
DSS	711
dStruct	104
DTA	158
dualKS	53
Dune	109
DupChecker	24
DuplexDiscovereR	70
dupRadar	198
dyebias	184
DynDoc	1434
easier	152
EasyCellType	140
easylift	103
EasyqpcR	59
easyreporting	126
easyRNASeq	207
EBarrays	214
EBcoexpress	168
EBImage	2781
EBSEA	129
EBSeq	405
EBSeqHMM	70
ecolitk	193
EDASeq	1566
edd	21
EDDA	49
edge	182
edgeR	24038
EDIRquery	105
eds	363
eegc	58
EGAD	155
EGSEA	267
eiR	138
eisa	72
eisaR	169
ELBOW	47
ELMER	267
ELViS	48
EMDomics	160
EmpiricalBrownsMethod	157
ENCODExplorer	47
EnhancedVolcano	5922
enhancerHomologSearch	112
EnMCB	125
ENmix	348
EnrichDO	80
EnrichedHeatmap	634
EnrichmentBrowser	525
enrichplot	21494
enrichTF	42
enrichViewNet	109
ensembldb	9432
ensemblVEP	92
ENVISIONQuery	43
epialleleR	132
EpiCompare	96
epidecodeR	118
EpiDISH	687
epigenomix	150
epigraHMM	117
epihet	19
EpiMix	117
epimutacions	117
epiNEM	146
EpipwR	79
epiregulon	96
epiregulon.extra	105
epistack	124
epistasisGA	113
EpiTxDb	128
epivizr	178
epivizrChart	140
epivizrData	133
epivizrServer	125
epivizrStandalone	129
erccdashboard	182
erma	167
ERSSA	139
esATAC	148
escape	440
escheR	141
esetVis	148
eudysbiome	154
evaluomeR	121
EventPointer	156
EWCE	293
ExCluster	110
ExiMiR	174
exomeCopy	154
exomePeak	54
exomePeak2	85
exonmap	14
ExperimentHub	7706
ExperimentHubData	271
ExperimentSubset	133
explorase	56
ExploreModelMatrix	258
ExpressionAtlas	229
ExpressionView	68
exprExternal	2
externalVector	16
extraChIPs	141
fabia	234
facopy	25
factDesign	163
factR	117
faers	128
FamAgg	159
famat	125
farms	64
fastLiquidAssociation	137
FastqCleaner	152
fastreeR	139
fastseg	774
fbat	12
FCBF	52
fCCAC	142
fCI	148
fcoex	31
fcScan	132
fdrame	156
FEAST	192
FeatSeekR	99
fedup	120
FELLA	203
FEM	48
fenr	107
ffpe	152
fgga	118
FGNet	174
fgsea	22144
FilterFFPE	131
findIPs	99
FindIT2	129
FindMyFriends	45
FISHalyseR	128
fishpond	288
FitHiC	160
flagme	138
FLAMES	137
flipflop	36
flowAI	552
flowBeads	150
flowBin	132
flowcatchR	173
flowCHIC	157
flowCL	40
flowClean	271
flowClust	719
flowCore	2431
flowCut	174
flowCyBar	121
flowDensity	312
flowFit	36
flowFlowJo	37
flowFP	210
flowGate	137
flowGraph	119
flowMap	61
flowMatch	160
flowMeans	198
flowMerge	172
flowPeaks	226
flowPhyto	27
flowPloidy	136
flowPlots	131
flowQ	53
flowQB	41
FlowRepositoryR	32
FlowSOM	997
flowSpecs	147
flowSpy	12
flowStats	472
flowTime	148
flowTrans	168
flowType	57
flowUtils	66
flowViz	889
flowVS	190
flowWorkspace	1088
fmcsR	268
fmrs	154
fobitools	131
focalCall	31
FoldGO	42
FourCSeq	46
FRASER	182
frenchFISH	96
FRGEpistasis	123
frma	176
frmaTools	160
FScanR	14
FunChIP	56
FunciSNP	57
funOmics	90
funtooNorm	138
FuseSOM	125
G4SNVHunter	74
GA4GHclient	123
GA4GHshiny	116
gaga	164
gage	825
gaggle	68
gaia	49
GAPGOM	25
GAprediction	117
garfield	121
GARS	120
GateFinder	117
gatom	127
gaucho	26
GBScleanR	135
gcapc	148
gcatest	164
gCMAP	51
gCMAPWeb	47
gCrisprTools	153
gcrma	1056
GCSConnection	12
GCSFilesystem	9
GCSscore	35
GDCRNATools	249
gDNAx	106
gDR	89
gDRcore	101
gDRimport	101
gDRstyle	102
gDRutils	98
GDSArray	231
gdsfmt	2144
GeDi	95
geecc	47
GEM	120
gemini	112
gemma.R	140
genArise	150
genbankr	74
gene2pathway	20
GeneAccord	36
GeneAnswers	77
geneAttribution	160
GeneBreak	150
geneClassifiers	140
GENE.E	29
GeneExpressionSignature	191
genefilter	11322
genefu	343
GeneGA	124
GeneGeneInteR	121
GeneGroupAnalysis	14
GeneMeta	201
GeneNetworkBuilder	174
GeneOverlap	688
geneplast	167
geneplotter	4114
GeneR	19
geneRecommender	162
GeneRegionScan	191
GeneRfold	7
geneRxCluster	148
GeneSelectMMD	154
GeneSelector	50
GENESIS	418
GeneSpring	13
GeneStructureTools	144
geNetClassifier	191
GeneticsBase	16
GeneticsDesign	45
GeneticsPed	172
GeneTonic	300
GeneTraffic	12
GeneTS	8
geneXtendeR	142
GENIE3	1414
genoCN	127
GenoGAM	33
genomation	658
GenomAutomorphism	116
GenomeBase	2
GenomeGraphs	67
GenomeInfoDb	55153
genomeIntervals	193
genomes	162
GenomicAlignments	22402
GenomicDataCommons	972
GenomicDistributions	173
GenomicFeatures	17197
GenomicFiles	1035
genomicInstability	138
GenomicInteractionNodes	112
GenomicInteractions	399
GenomicOZone	135
GenomicPlot	131
GenomicRanges	45758
GenomicScores	590
GenomicSuperSignature	140
GenomicTuples	147
Genominator	64
genoset	56
genotypeeval	39
GenoView	19
genphen	22
GenProSeq	108
GenRank	17
GenVisR	318
GeoDiff	121
GEOexplorer	136
GEOfastq	138
GEOmetadb	294
geomeTriD	76
GeomxTools	386
GEOquery	10072
GEOsearch	16
GEOsubmission	164
GeoTcgaData	213
gep2pep	125
gespeR	84
getDEE2	119
geva	125
GEWIST	124
geyser	59
gff3Plotter	3
gg4way	104
GGBase	66
ggbio	1746
ggcyto	805
ggkegg	525
ggmanh	271
ggmsa	563
GGPA	120
ggsc	153
ggseqalign	78
ggspavis	261
GGtools	83
ggtree	22964
ggtreeDendro	116
ggtreeExtra	1217
ggtreeSpace	92
GIGSEA	134
ginmappeR	95
gINTomics	89
girafe	190
GISPA	38
GLAD	247
GladiaTOX	122
Glimma	1007
glmGamPoi	5121
glmSparseNet	250
GlobalAncova	937
globalSeq	126
globaltest	1660
GloScope	111
gmapR	188
GmicR	131
gmoviz	127
GMRP	121
GNET2	112
GNOSIS	102
goCluster	4
GOexpress	179
GOfuncR	353
GOFunction	52
GoogleGenomics	22
GOpro	178
goProfiles	180
GOSemSim	19924
goseq	1494
GOSim	81
goSorensen	119
goSTAG	160
GOstats	1234
GOsummaries	72
GOTHiC	166
goTools	167
GPA	112
gpart	30
gpls	257
gprege	49
gpuMagic	107
gQTLBase	32
gQTLstats	46
GrafGen	93
gramm4R	9
GRaNIE	125
granulator	179
graper	115
graph	19450
GraphAlignment	135
GraphAT	194
graphite	3342
GraphPAC	85
GRENITS	135
GreyListChIP	978
GRmetrics	171
groHMM	146
GRridge	44
GSALightning	119
GSAR	193
GSCA	156
gscreend	135
GSEABase	8644
GSEABenchmarkeR	139
GSEAlm	179
GSEAmining	136
gsean	141
GSgalgoR	127
GSReg	144
GSRI	151
GSVA	7256
gtrellis	199
GUIDEseq	165
Guitar	229
Gviz	3149
GWAS.BAYES	130
gwascat	609
GWASTools	660
gwasurvivr	151
GWENA	264
gypsum	3215
h5mread	1849
h5vc	177
hapFabia	173
Harman	210
HarmonizR	115
Harshlight	149
hca	110
HCABrowser	9
HCAExplorer	7
HCAMatrixBrowser	2
HCsnip	43
HDF5Array	14873
HDTD	124
hdxmsqc	91
heatmaps	284
Heatplus	447
HelloRanges	148
HELP	163
HEM	163
hermes	285
HERON	101
Herper	170
hexbin	61
HGC	112
hiAnnotator	157
HIBAG	208
HicAggR	96
HiCBricks	194
HiCcompare	278
HiCDCPlus	155
HiCDOC	124
HiCExperiment	183
HiContacts	176
HiCool	106
HiCParser	37
hicrep	11
hicVennDiagram	113
hierGWAS	136
hierinf	103
HilbertCurve	173
HilbertVis	211
HilbertVisGUI	105
HiLDA	138
hipathia	236
HIPPO	118
hiReadsProcessor	163
HIREewas	118
HiTC	234
hmdbQuery	139
HMMcopy	398
HoloFoodR	83
hoodscanR	147
hopach	323
HPAanalyze	224
hpar	305
HPAStainR	13
HPiP	128
HTqPCR	151
HTSanalyzeR	63
HTSeqGenie	51
htSeqTools	57
HTSFilter	233
HuBMAPR	72
HubPub	162
HumanTranscriptomeCompendium	55
hummingbird	107
HVP	2
HybridExpress	111
HybridMTest	179
hypeR	164
hyperdraw	164
hypergraph	191
iASeq	127
iasva	144
iBBiG	175
ibh	143
iBMQ	124
iCARE	180
Icens	396
icetea	125
iCheck	134
iChip	179
iClusterPlus	443
iCNV	139
iCOBRA	324
ideal	160
IdeoViz	161
idiogram	181
IdMappingAnalysis	58
IdMappingRetrieval	43
idpr	134
idr2d	134
IFAA	102
iFlow	12
igblastr	6
iGC	152
IgGeneUsage	125
igvR	180
igvShiny	117
IHW	684
illuminaio	2651
ILoReg	133
imageHTS	80
imageTCGA	31
IMAS	117
imcRtools	262
Imetagene	42
IMMAN	124
immApex	79
ImmuneSpaceR	47
immunoClust	151
immunogenViewer	67
immunotation	131
IMPCdata	119
ImpulseDE	12
ImpulseDE2	21
impute	10543
INDEED	104
iNETgrate	108
infercnv	1259
infinityFlow	140
Informeasure	109
InPAS	165
INPower	159
inSilicoDb	32
inSilicoMerging	34
INSPEcT	151
INTACT	102
InTAD	134
intansv	159
interacCircos	111
InteractionSet	1686
InteractiveComplexHeatmap	440
interactiveDisplay	182
interactiveDisplayBase	3735
InterCellar	141
IntEREst	134
InterMineR	78
IntOMICS	13
IntramiRExploreR	135
inveRsion	40
IONiseR	168
iontree	32
iPAC	89
iPath	110
ipdDb	191
IPO	223
IPPD	55
IRanges	56458
IRISFGM	27
IrisSpatialFeatures	8
ISAnalytics	104
iSEE	503
iSEEde	112
iSEEfier	97
iSEEhex	135
iSEEhub	195
iSEEindex	105
iSEEpathways	106
iSEEtree	116
iSEEu	166
iSeq	148
ISLET	122
islify	30
iSNetwork	6
isobar	194
IsoBayes	109
IsoCorrectoR	167
IsoCorrectoRGUI	109
IsoformSwitchAnalyzeR	329
IsoGeneGUI	73
ISoLDE	119
isomiRs	184
iSPlot	9
ITALICS	148
iterativeBMA	158
iterativeBMAsurv	138
iterClust	31
iteremoval	19
IVAS	141
ivygapSE	142
IWTomics	162
jazzPanda	39
jmosaics	34
joda	45
JunctionSeq	29
karyoploteR	801
katdetectr	117
KBoost	99
KCsmart	175
kebabs	192
KEGGgraph	5295
KEGGlincs	145
keggorth	8
keggorthology	247
KEGGprofile	51
KEGGREST	36912
KEGGSOAP	25
kimod	19
KinSwingR	117
kissDE	117
kmcut	85
KnowSeq	143
knowYourCG	100
koinar	78
LACE	195
lapmix	103
LBE	230
ldblock	180
LEA	695
LedPred	135
lefser	556
lemur	125
les	151
levi	113
lfa	317
Lheuristic	29
limma	35582
limmaGUI	188
limpa	37
limpca	95
LimROTS	37
LINC	23
LineagePulse	31
lineagespot	103
LinkHD	142
Linnorm	205
LinTInd	111
lionessR	142
lipidr	187
LipidTrend	9
LiquidAssociation	149
lisaClust	193
lmdme	149
LMGene	52
LOBSTAHS	152
loci2path	125
logicFS	168
logitT	61
Logolas	20
lol	33
LOLA	246
LoomExperiment	625
LowMACA	39
LPE	162
LPEadj	81
lpNet	140
lpsymphony	856
LRBaseDbi	122
LRcell	116
lumi	1216
lute	94
LVSmiRNA	43
LymphoSeq	154
M3C	581
M3D	31
M3Drop	534
m6Aboost	103
maanova	93
Maaslin2	932
maaslin3	86
Macarron	130
macat	88
maCorrPlot	159
MACPET	24
MACSQuantifyR	108
MACSr	146
maDB	26
made4	306
MADSEQ	132
maftools	2531
MAGAR	112
MAGeCKFlute	311
magpie	108
magrene	119
MAI	116
maigesPack	96
MAIT	206
makecdfenv	254
makePlatformDesign	10
MANOR	177
manta	56
MantelCorr	136
MAPFX	97
mAPKL	58
maPredictDSC	139
mapscape	118
mariner	108
marr	116
marray	1710
martini	131
maser	185
maSigPro	385
maskBAD	159
MassArray	135
massiR	164
MassSpecWavelet	1583
MAST	2077
mastR	193
matchBox	128
matchprobes	19
MatrixGenerics	42857
MatrixQCvis	208
MatrixRider	130
matter	277
MaxContrastProjection	22
MBAmethyl	120
MBASED	146
MBCB	143
MBECS	118
mbkmeans	364
mbOmic	9
mBPCR	158
MBQN	115
mbQTL	96
MBttest	143
mcaGUI	58
MCbiclust	151
MCRestimate	52
mCSEA	163
mdgsa	45
mdp	143
mdqc	162
MDTS	121
MEAL	171
MeasurementError.cor	147
MEAT	130
MEB	127
MEDIPS	199
MEDME	149
megadepth	186
MEIGOR	159
Melissa	129
memes	268
MergeMaid	59
Mergeomics	152
MeSHDbi	221
meshes	211
meshr	172
MeSHSim	22
MesKit	151
messina	137
metaArray	59
Metab	139
metabCombiner	186
metabinR	107
MetaboAnnotation	285
MetaboCoreUtils	1767
MetaboDynamics	55
metabolomicsWorkbenchR	143
metabomxtr	132
MetaboSignal	180
metaCCA	143
MetaCyto	138
metagene	64
metagene2	150
metagenomeFeatures	41
metagenomeSeq	1597
metahdep	143
metaMS	242
MetaNeighbor	181
MetaPhOR	122
metapod	4723
metapone	121
metaSeq	166
metaseqR	53
metaseqR2	144
metavizr	35
MetaVolcanoR	57
metaX	16
MetCirc	154
MethCP	24
methimpute	140
methInheritSim	131
methodical	81
MethPed	142
MethReg	118
methrix	154
MethTargetedNGS	133
methVisual	44
methyAnalysis	64
MethylAid	174
methylCC	142
methylclock	226
methylGSA	188
methyLImp2	107
methylInheritance	140
methylKit	713
MethylMix	188
methylMnM	170
methylPipe	162
methylscaper	141
MethylSeekR	233
methylSig	131
methylumi	1486
methyvim	15
MetID	135
MetMashR	58
MetNet	144
mfa	150
Mfuzz	1426
MGFM	149
MGFR	138
MGnifyR	130
mgsa	178
mia	1386
miaDash	43
miaSim	130
miaViz	330
MiChip	148
microbiome	1885
microbiomeDASim	120
microbiomeExplorer	132
microbiomeMarker	381
MicrobiomeProfiler	175
MicrobiotaProcess	499
microRNA	265
microSTASIS	112
MICSQTL	103
midasHLA	122
MIGSA	36
miloR	520
mimager	124
MIMOSA	51
mina	102
MineICA	169
minet	660
minfi	2253
MinimumDistance	185
MiPP	161
miQC	175
MIRA	142
MiRaGE	166
miRBaseConverter	223
miRcomp	157
mirIntegrator	152
MIRit	108
miRLAB	145
miRmine	60
miRNAmeConverter	134
miRNApath	141
miRNAtap	204
miRSM	126
miRsponge	10
miRspongeR	118
Mirsynergy	34
mirTarRnaSeq	131
missMethyl	1120
missRows	121
mist	32
mistyR	183
mitch	122
mitoClone2	138
mitology	51
mitoODE	32
mixOmics	3004
MLInterfaces	423
mlm4omics	7
MLP	198
MLSeq	191
MMAPPR2	23
MMDiff	38
MMDiff2	147
mmgmos	3
mmnet	34
MmPalateMiRNA	59
MMUPHin	225
mnem	147
moanin	194
mobileRNA	96
MobilityTransformR	50
MODA	129
ModCon	110
Modstrings	142
MOFA	14
MOFA2	657
MOGAMUN	111
mogsa	285
MoleculeExperiment	129
MOMA	137
monaLisa	212
monocle	3310
Moonlight2R	106
MoonlightR	160
MoPS	34
mosaics	240
mosbi	121
MOSClip	72
mosdef	268
MOSim	142
Motif2Site	123
motifbreakR	224
motifcounter	123
MotifDb	566
motifmatchr	1263
MotifPeeker	58
motifRG	56
motifStack	646
motifTestR	115
MotIV	69
MouseFM	188
MPAC	80
MPFE	120
mpra	156
MPRAnalyze	134
MQmetrics	21
mQTL.NMR	39
msa	2059
MSA2dist	147
MsBackendMassbank	120
MsBackendMetaboLights	78
MsBackendMgf	460
MsBackendMsp	367
MsBackendRawFileReader	125
MsBackendSql	117
MsCoreUtils	3380
MsDataHub	143
MSEADbi	5
MsExperiment	1213
MsFeatures	1255
msgbsR	133
MSGFgui	50
MSGFplus	35
msImpute	223
mslp	94
msmsEDA	267
msmsTests	278
MSnbase	2978
MSnID	333
mspms	63
MSPrep	187
msPurity	157
msqrob2	209
MsQuality	114
MSstats	549
MSstatsBig	107
MSstatsBioNet	42
MSstatsConvert	464
MSstatsLiP	133
MSstatsLOBD	109
MSstatsPTM	226
MSstatsQC	145
MSstatsQCgui	116
MSstatsSampleSize	36
MSstatsShiny	151
MSstatsTMT	295
MSstatsTMTPTM	6
MTseeker	9
MuData	136
Mulcom	174
MultiAssayExperiment	6114
MultiBaC	142
multiClust	155
multicrispr	116
MultiDataSet	1165
multiGSEA	174
multiHiCcompare	182
MultiMed	135
multiMiR	375
MultimodalExperiment	107
multiOmicsViz	57
MultiRNAflow	123
multiscan	147
multiSight	23
multistateQTL	88
multiWGCNA	147
multtest	11556
mumosa	118
MungeSumstats	831
muscat	554
muscle	412
musicatk	140
MutationalPatterns	336
MVCClass	194
mvGST	35
MWASTools	177
mygene	361
myvariant	147
mzID	2849
mzR	3106
NADfinder	136
NanoMethViz	156
NanoStringDiff	159
NanoStringNCTools	369
NanoStringQCPro	49
nanotatoR	29
NanoTube	150
NarrowPeaks	41
NBAMSeq	192
NBSplice	21
ncdfFlow	1035
ncGTW	190
NCIgraph	109
ncRNAtools	115
ndexr	126
neaGUI	27
nearBynding	125
Nebulosa	1243
NeighborNet	41
nem	83
nempi	108
NetActivity	104
netbenchmark	28
netbiov	73
netboost	122
netboxr	27
netDx	45
nethet	154
netOmics	28
NetPathMiner	149
netprioR	111
netReg	22
netresponse	170
NetSAM	169
netSmooth	146
networkBMA	67
netZooR	95
NeuCA	49
NewWave	127
NGScopy	38
ngsReports	152
nipalsMCIA	118
nnNorm	180
nnSVG	199
NOISeq	596
nondetects	80
NoRCE	119
normalize450K	135
NormalyzerDE	226
NormqPCR	222
normr	193
NPARC	143
npGSEA	137
NTW	137
nucleoSim	128
nucleR	186
nuCpos	128
nudge	54
nullranges	214
NuPoP	177
NxtIRFcore	21
occugene	144
OCplus	183
octad	111
ODER	15
odseq	123
OGRE	117
OGSA	36
oligo	2071
oligoClasses	1618
OLIN	194
OLINgui	158
omada	105
OmaDB	226
omicade4	201
OmicCircos	261
omicplotR	141
omicRexposome	144
OmicsLonDA	36
OmicsMarkeR	27
OmicsMLRepoR	64
OMICsPCA	139
omicsPrint	146
omicsViewer	126
Omixer	129
OmnipathR	858
ompBAM	159
omXplore	75
Onassis	32
oncomix	137
oncoscanR	121
OncoScore	126
OncoSimulR	156
oneChannelGUI	71
oneSENSE	41
onlineFDR	103
ontoCAT	49
ontoProc	243
ontoTools	31
openCyto	621
openPrimeR	172
openPrimeRui	60
OpenStats	98
OperaMate	21
oposSOM	191
oppar	147
oppti	97
optimalFlow	125
OPWeight	123
OrderedList	167
ORFhunteR	125
ORFik	222
OrganismDbi	2491
Organism.dplyr	381
orthogene	421
orthos	118
OSAT	172
Oscope	153
OSTA.data	40
OTUbase	147
OutlierD	53
OUTRIDER	240
OutSplice	108
OVESEG	135
PAA	170
packFinder	139
padma	138
PADOG	306
pageRank	119
PAIRADISE	159
paircompviz	139
pairedGSEA	90
pairkat	129
pairseqsim	3
pamr	32
pandaR	189
panelcn.mops	127
PAnnBuilder	51
PanomiR	116
panp	183
PANR	164
PanViz	44
PanVizGenerator	36
PAPi	40
pareg	49
parglms	130
parody	158
partCNV	102
PAST	121
Path2PPI	156
pathifier	162
pathlinkR	134
pathMED	24
PathNet	149
PathoStat	198
pathprint	20
pathRender	157
pathVar	47
pathview	4700
pathwayPCA	149
PathwaySplice	19
PatientGeneSets	10
paxtoolsr	111
Pbase	40
pbcmc	13
pcaExplorer	367
pcaGoPromoter	37
pcaMethods	4968
PCAN	150
PCAtools	1225
pcot2	79
PCpheno	63
pcxn	40
PDATK	180
pdInfoBuilder	188
pdmclass	50
PeacoQC	270
peakPantheR	120
PECA	162
peco	127
Pedixplorer	97
pengls	108
PepSetTest	79
PepsNMR	163
pepStat	134
pepXMLTab	140
PERFect	26
periodicDNA	124
perturbatr	23
pfamAnalyzeR	285
PFP	20
PGA	38
pgca	110
PGSEA	105
pgUtils	16
pgxRpi	103
phantasus	232
phantasusLite	113
PharmacoGx	270
phemd	35
phenoDist	35
PhenoGeneRanker	107
phenomis	121
phenopath	157
phenoTest	184
PhenStat	156
philr	206
PhIPData	131
phosphonormalizer	116
PhosR	182
PhyloProfile	140
phyloseq	5577
Pi	57
piano	385
PICB	48
pickgene	136
PICS	165
Pigengene	164
PING	155
pint	39
pipeComp	130
pipeFrame	168
PIPETS	96
Pirat	75
PIUMA	95
pkgDepTools	72
planet	241
planttfhunter	115
plasmut	99
plateCore	61
plethy	62
plgem	183
plier	200
PloGO2	36
plotgardener	243
plotGrouper	111
PLPE	154
plrs	42
PLSDAbatch	118
plw	59
plyinteractions	110
plyranges	1046
plyxp	70
pmm	125
pmp	173
PoDCall	97
podkat	163
poem	38
pogos	165
polyester	125
Polyfit	33
PolySTest	78
Polytect	66
POMA	225
POST	16
PoTRA	15
PowerExplorer	17
powerTCR	299
POWSC	122
ppcseq	128
PPInfer	222
ppiStats	85
pqsfinder	183
prada	64
pram	136
prebs	144
preciseTAD	129
PrecisionTrialDrawer	24
PREDA	175
predictionet	59
preprocessCore	14410
primirTSS	124
PrInCE	133
Prize	26
proActiv	143
proBAMr	133
proBatch	36
PROcess	187
procoil	172
ProCoNA	39
proDA	265
proFIA	41
profileplyr	278
profileScoreDist	116
progeny	520
projectR	144
pRoloc	304
pRolocGUI	190
PROMISE	164
PRONE	82
PROPER	181
PROPS	130
Prostar	167
prot2D	26
proteasy	29
proteinProfiles	119
ProteoDisco	105
ProteomicsAnnotationHubData	28
ProteoMM	137
proteoQC	43
protGear	120
ProtGenerics	11059
PSEA	62
psichomics	147
PSICQUIC	45
PSMatch	2201
psygenet2r	94
ptairMS	110
PubScore	19
pulsedSilac	21
puma	196
PureCN	239
pvac	153
pvca	316
Pviz	134
pwalign	6708
PWMEnrich	244
pwOmics	149
pwrEWAS	25
qckitfastq	125
qcmetrics	166
QDNAseq	345
QFeatures	2633
qmtools	123
qpcrNorm	157
qpgraph	227
qPLEXanalyzer	132
qrqc	54
QRscore	47
qsea	137
qsmooth	192
QSutils	212
qsvaR	193
QTLExperiment	105
Qtlizer	122
QUALIFIER	48
quantiseqr	622
quantro	257
quantsmooth	643
QuartPAC	69
QuasR	364
QuaternaryProd	142
QUBIC	182
qusage	416
qvalue	19870
R3CPET	134
r3Cseq	184
R453Plus1Toolbox	181
R4RNA	655
RadioGx	126
raer	105
RaggedExperiment	735
RAIDS	103
rain	177
rama	54
RamiGO	33
ramr	123
ramwas	163
RandomWalkRestartMH	51
randPack	141
randRotation	109
RankProd	289
RAREsim	104
RareVariantVis	160
Rariant	54
Rarr	204
rawDiag	105
rawrr	214
RbcBook1	229
Rbec	111
RBGL	8790
RBioFormats	277
RBioinf	172
rBiopaxParser	207
rBLAST	241
RBM	141
Rbowtie	435
Rbowtie2	288
RbowtieCuda	21
rbsurv	168
Rbwa	109
Rcade	72
RCAS	171
RCASPAR	124
rcellminer	175
rCGH	169
Rchemcpp	39
RchyOptimyx	48
RcisTarget	1289
RCM	135
Rcollectl	62
Rcpi	202
RCSL	125
Rcwl	119
RcwlPipelines	120
RCX	124
RCy3	802
RCyjs	149
RCytoscape	36
RDAVIDWebService	73
Rdbi	19
RdbiPgSQL	13
rDGIdb	63
Rdisop	478
RDRToolbox	199
ReactomeContentService4R	80
ReactomeGraph4R	36
ReactomeGSA	269
ReactomePA	3066
readat	22
ReadqPCR	243
reb	56
REBET	121
rebook	180
receptLoss	108
reconsi	108
recount	405
recount3	335
recountmethylation	137
recoup	146
RedeR	313
RedisParam	108
REDseq	164
ReducedExperiment	58
RefNet	31
RefPlus	93
RegEnrich	137
regionalpcs	110
RegionalST	85
regioneR	1725
regioneReloaded	119
regionReport	196
regsplice	118
regutools	125
REMP	132
Repitools	323
ReportingTools	547
reposTools	2
RepViz	115
ReQON	76
ResidualMatrix	3857
RESOLVE	103
Resourcerer	25
restfulSE	108
retrofit	105
ReUseData	99
rexposome	167
rfaRm	113
Rfastp	203
RFLOMICS	33
rflowcyt	27
rfPred	160
rGADEM	352
RGalaxy	45
rGenomeTracks	118
Rgin	23
RGMQL	46
RgnTX	112
rgoslin	174
RGraph2js	143
Rgraphviz	8885
rGREAT	634
RGSEA	167
rgsepd	150
rhdf5	21574
rhdf5client	157
rhdf5filters	21095
Rhdf5lib	22969
rhinotypeR	70
Rhisat2	221
Rhtslib	23507
rHVDM	68
RiboCrypt	100
RiboDiPA	128
RiboProfiling	176
ribor	131
riboSeqR	167
ribosomeProfilingQC	145
rifi	109
rifiComparative	103
Rigraphlib	146
rigvf	40
RImmPort	117
Ringo	151
Rintact	12
RIPAT	33
RIPSeeker	62
Risa	196
RITAN	117
RIVER	145
RJMCMCNucleosomes	129
RLassoCox	119
RLMM	147
RLSeq	25
RMAGEML	14
Rmagpie	160
RMAPPER	17
RMassBank	201
rMAT	47
rmelting	128
RmiR	48
Rmmquant	129
rmspc	113
RNAAgeCalc	154
RNAdecay	115
rnaEditr	129
RNAinteract	68
RNAither	68
RNAmodR	122
RNAmodR.AlkAnilineSeq	114
RNAmodR.ML	128
RNAmodR.RiboMethSeq	117
RNAprobR	33
RNAsense	111
rnaseqcomp	161
RNAseqCovarImpute	92
rnaSeqMap	51
RNASeqPower	255
RNASeqR	23
RnaSeqSampleSize	172
RnBeads	332
Rnits	137
roar	155
roastgsa	105
ROC	1103
ROCpAI	102
RolDE	125
Roleswitch	40
Rolexa	32
rols	408
ROntoTools	221
ropls	1197
ROSeq	140
ROTS	266
RPA	146
rprimer	136
RProtoBufLib	2307
RpsiXML	80
rpx	324
Rqc	331
rqt	103
rqubic	158
rRDP	159
Rredland	13
RRHO	160
rrvgo	550
Rsamtools	23282
rsbml	191
rScudo	122
rsemmed	114
RSeqAn	161
rSFFreader	43
RSNPper	11
Rsubread	2037
RSVSim	147
rSWeeP	126
rTANDEM	53
RTCA	152
RTCGA	458
RTCGAToolbox	476
RTN	239
RTNduals	131
RTNsurvival	125
RTools4TB	7
RTopper	175
Rtpca	137
rtracklayer	20014
Rtreemix	159
rTRM	185
rTRMui	147
RUCova	45
runibic	119
Ruuid	19
RUVcorr	139
RUVnormalize	146
RUVSeq	869
Rvisdiff	99
RVS	118
RWebServices	31
rWikiPathways	390
S4Arrays	41045
S4Vectors	56488
safe	586
SAGElyzer	8
sagenhaft	170
SAGx	60
SAIGEgds	158
samExploreR	15
sampleClassifier	130
SamSPECTRAL	195
sangeranalyseR	272
sangerseqR	749
SANTA	152
sapFinder	47
saps	16
SARC	109
sarks	111
saseR	89
satuRn	321
savR	39
SBGNview	215
sbgr	11
SBMLR	153
SC3	374
Scale4C	159
ScaledMatrix	12464
scAlign	16
scanMiR	131
scanMiRApp	115
scAnnotatR	212
SCAN.UPC	158
SCANVIS	133
SCArray	137
SCArray.sat	108
SCATE	19
scater	7150
scatterHatch	113
scBFA	130
SCBN	121
scBubbletree	123
scCB2	111
scClassifR	7
scClassify	190
sccomp	163
scDataviz	141
scDblFinder	1828
scDD	186
scDDboost	108
scde	454
scDesign3	128
scDiagnostics	78
scDotPlot	108
scds	475
SCFA	125
scFeatureFilter	134
scFeatures	116
scfind	18
scGPS	143
schex	181
scHiCcompare	48
scHOT	135
scider	106
scifer	114
ScISI	79
scMAGeCK	17
scmap	286
scMerge	460
scMET	115
scmeth	121
scMitoMut	97
scMultiSim	113
SCnorm	177
scone	175
Sconify	132
SCOPE	132
scoreInvHap	138
scoup	68
scp	256
scPCA	145
scPipe	163
scQTLtools	46
scran	4729
scrapper	192
scReClassify	134
scRecover	140
screenCounter	101
ScreenR	108
scRepertoire	696
scRNAseqApp	115
scruff	138
scry	322
scShapes	106
scsR	45
scTensor	122
scTGIF	209
scTHI	110
scTreeViz	115
scuttle	9076
scviR	96
SDAMS	131
seahtrue	81
sechm	225
segmenter	119
segmentSeq	184
selectKSigs	109
SELEX	160
SemDist	159
semisup	121
SemSim	5
SEPA	23
SEPIRA	42
seq2pathway	237
seqArchR	111
seqArchRplus	105
SeqArray	901
seqbias	66
seqCAT	142
seqCNA	73
seqcombo	111
SeqGate	116
SeqGSEA	259
seq.hotSPOT	101
Seqinfo	100
seqLogo	3501
seqPattern	724
seqplots	52
seqsetvis	154
SeqSQC	211
seqTools	161
SeqVarTools	472
SEraster	41
sesame	830
SEtools	209
sevenbridges	153
sevenC	136
SGCP	181
SGSeq	333
SharedObject	151
shinyDSP	46
shinyepico	125
shiny.gosling	107
shinyMethyl	190
shinyTANDEM	36
ShortRead	5918
SIAMCAT	199
SICtools	143
sigaR	41
SigCheck	125
sigFeature	328
SigFuge	163
siggenes	2988
sights	147
signatureSearch	218
signeR	151
signet	10
signifinder	97
sigPathway	73
SigsPack	112
sigsquared	135
SIM	160
SIMAT	152
SimBindProfiles	73
SimBu	198
SIMD	112
SimFFPE	106
similaRpeak	156
SIMLR	211
simona	462
simPIC	95
simpleaffy	99
simpleSeg	154
simplifyEnrichment	1089
simulatorAPMS	14
simulatorZ	33
sincell	166
single	38
SingleCellAlleleExperiment	107
SingleCellExperiment	16572
SingleCellSignalR	259
singleCellTK	339
SingleMoleculeFootprinting	118
SingleR	4436
singscore	1547
SiPSiC	106
SISPA	42
sitadela	107
Site2Target	30
sitePath	136
sizepower	151
SJava	25
sketchR	105
skewr	131
slalom	152
SLGI	80
slingshot	1701
slinky	26
SLqPCR	153
SMAD	112
SMAP	85
smartid	106
SMITE	141
smoothclust	107
smoppix	47
SNAGEE	151
snapCGH	88
snapcount	119
snifter	182
snm	181
SNPchip	62
SNPediaR	111
SNPhood	159
snpMatrix	20
SNPRelate	1759
snpStats	2029
soGGi	378
sojourner	28
SomatiCA	35
SomaticSignatures	217
SOMNiBUS	99
sosta	54
SpaceMarkers	96
SpacePAC	107
spacexr	74
spade	38
Spaniel	145
SpaNorm	84
sparrow	440
SparseArray	42825
sparseDOSSA	33
sparseMatrixStats	15376
sparsenetgls	107
SparseSignatures	146
spaSim	118
SpatialCPie	150
spatialDE	154
SpatialDecon	238
SpatialExperiment	5388
SpatialExperimentIO	56
spatialFDA	72
SpatialFeatureExperiment	265
spatialHeatmap	253
SpatialOmicsOverlay	109
spatialSimGP	64
spatzie	113
speckle	293
specL	160
SpeCond	187
Spectra	1890
SpectralTAD	150
SpectraQL	72
SPEM	155
SPIA	588
SPIAT	187
spicyR	235
SpidermiR	41
spikeLI	132
spiky	116
spillR	97
spkTools	152
splatter	459
splicegear	52
spliceR	30
spliceSites	43
SpliceWiz	185
SplicingFactory	107
SplicingGraphs	201
SplineDV	62
splineTCDiffExpr	1
splineTimeR	157
SPLINTER	120
splots	192
SPONGE	140
spoon	94
SpotClean	152
SPOTlight	337
spotSegmentation	44
SpotSweeper	115
spqn	124
SPsimSeq	191
SQLDataFrame	113
SQUADD	51
squallms	77
sRACIPE	135
SRAdb	457
sRAP	55
SRGnet	17
srnadiff	114
sscore	66
sscu	137
sSeq	220
ssize	175
sSNAPPY	199
SSPA	123
ssPATHS	125
ssrch	126
ssviz	155
StabMap	70
stageR	254
stam	13
STAN	53
standR	191
staRank	77
StarBioTrek	48
Starr	66
STATegRa	162
Statial	140
statTarget	166
STdeconvolve	127
stepNorm	161
stepwiseCM	45
stJoincount	124
strandCheckR	133
Streamer	150
STRINGdb	1561
STROMA4	29
struct	187
Structstrings	129
structToolbox	185
StructuralVariantAnnotation	228
SubCellBarCode	137
subSeq	163
SUITOR	102
SummarizedBenchmark	47
SummarizedExperiment	41607
Summix	112
supersigs	198
supraHex	317
surfaltr	118
SurfR	88
survClust	83
survcomp	1448
survtype	116
Sushi	87
sva	7321
svaNUMT	98
SVAPLSseq	12
svaRetro	114
SVM2CRM	25
SVMDO	120
SVP	46
SWATH2stats	144
SwathXtend	134
swfdr	150
SwimR	41
switchBox	154
switchde	129
synapsis	116
synapter	185
synergyfinder	291
SynExtend	132
synlet	144
SynMut	115
syntenet	155
systemPipeR	1204
systemPipeShiny	134
systemPipeTools	113
tadar	108
TADCompare	149
tanggle	140
TAPseq	136
target	135
TargetDecoy	139
TargetScore	162
TargetSearch	169
TarSeqQC	52
TaxSEA	30
TBSignatureProfiler	115
TCC	294
TCGAbiolinks	4975
TCGAbiolinksGUI	44
TCGAutils	632
TCseq	709
TDARACNE	49
TDbasedUFE	112
TDbasedUFEadv	113
TEKRABber	194
TENET	34
TENxIO	128
tenXplore	133
TEQC	167
terapadog	49
ternarynet	137
terraTCGAdata	114
TFARM	118
TFBSTools	3213
TFEA.ChIP	171
TFHAZ	134
TFutils	157
tidybulk	337
tidyCoverage	96
tidyFlowCore	79
tidyomics	123
tidysbml	76
tidySingleCellExperiment	267
tidySpatialExperiment	118
tidySummarizedExperiment	336
tidytof	82
tigre	173
TileDBArray	131
tilingArray	207
timecourse	175
timeOmics	159
timescape	127
TimeSeriesExperiment	27
TimiRGeN	29
TIN	156
TissueEnrich	286
TitanCNA	163
tkWidgets	1432
tLOH	116
TMixClust	135
TMSig	73
TNBC.CMS	39
TnT	113
TOAST	485
tofsims	24
tomoda	127
tomoseqr	114
TOP	94
ToPASeq	40
topconfects	210
topdownr	139
topGO	2552
ToxicoGx	132
TPP	191
TPP2D	131
tpSVG	95
tracktables	215
trackViewer	637
tradeSeq	624
TrajectoryGeometry	103
TrajectoryUtils	1967
transcriptogramer	130
transcriptR	156
transformGamPoi	118
transite	137
tRanslatome	225
transmogR	89
transomics2cytoscape	141
TransView	115
TraRe	19
traseR	155
Travel	4
traviz	69
TreeAndLeaf	170
treeclimbR	93
treeio	23137
treekoR	139
TreeSummarizedExperiment	2132
TREG	122
trena	43
TReNA	3
Trendy	126
TRESS	120
tricycle	288
TrIdent	49
triform	46
trigger	160
trio	191
triplex	167
tripr	119
tRNA	135
tRNAdbImport	123
tRNAscanImport	118
TRONCO	167
TSAR	94
TSCAN	592
tscR	23
tspair	60
TSRchitect	33
TSSi	39
ttgsea	106
TTMap	139
TurboNorm	169
TVTB	132
tweeDEseq	197
twilight	190
twoddpcr	143
txcutr	104
txdbmaker	4496
tximeta	1016
tximport	3516
TxRegInfra	14
TypeInfo	92
UCell	1625
UCSC.utils	40065
Ularcirc	133
UMI4Cats	123
uncoverappLib	121
UNDO	157
unifiedWMWqPCR	117
UniProt.ws	535
Uniquorn	148
universalmotif	983
updateObject	113
UPDhmm	84
uSORT	142
VAExprs	106
VanillaICE	264
VarCon	125
variancePartition	970
VariantAnnotation	11108
VariantExperiment	89
VariantFiltering	166
VariantTools	195
vasp	8
VaSP	125
vbmp	203
VCFArray	120
VDJdive	118
Vega	37
VegaMC	170
velociraptor	189
veloviz	108
VennDetail	283
VERSO	106
vidger	183
viper	761
virtualArray	15
ViSEAGO	152
VisiumIO	126
visiumStitched	53
vissE	171
vmrseq	25
Voyager	238
VplotR	140
vsclust	114
vsn	4844
vtpnet	164
vulcan	111
waddR	96
wateRmelon	890
wavClusteR	138
waveTiling	44
weaver	154
webbioc	161
weitrix	136
widgetInvoke	7
widgetTools	1429
wiggleplotr	196
wpm	134
wppi	98
Wrench	1580
XAItest	32
XBSeq	40
xCell2	56
XCIR	10
xcms	1472
xcore	112
XDE	190
XeniumIO	40
xenLite	72
Xeva	173
XINA	137
xmapbridge	156
xmapcore	10
XNAString	117
xps	60
XVector	51000
y2hStat	4
yamss	125
YAPSA	162
yaqcaffy	49
yarn	172
zellkonverter	1806
zenith	159
zFPKM	169
zinbwave	785
zitools	73
zlibbioc	48098
ZygosityPredictor	99