Since the release of Cytoscape 2.5 (July 2007), there are 98618 users (distinct IP addresses) downloaded plugins from this site. Total download count is 735876.

 

Plugin Name
version
Total download

Total downlaod

last 30 days

3DScape
0.4
0
 
0.2
0
3DScapeCS
0.6
1692
addParentNeighbors
1.0
1813
AdvancedNetworkMerge
1.12
2152
 
1.10
1802
 
1.05
714
 
1.04
445
AgilentLiteratureSearch
2.78
3812
 
2.77
13841
 
2.76
4164
 
2.71
4533
 
2.70
6149
 
2.69
1463
 
2.68
1760
 
2.55
8017
 
2.54
382
AllegroLayout
1.1
758
 
1.0
160
AllegroMCODE
2.1
1587
 
2.0
237
 
1.0
4197
AlternativeTableImport
1.3
529
 
1.2
274
 
1.1
236
 
1.0
264
APCluster
2.1
1982
APID2NET
1.52
6139
 
1.51
1732
 
1.5
2092
batchTool
1.0
1578
 
0.5
1199
BiNAT
1.0
0
BiNGO
2.44
23589
 
2.42
3714
 
2.31
6168
 
2.3
16135
 
2.1
9127
 
2.0
1052
BiNoM
2.5
887
 
2.4
29
 
2.3
100
 
2.2
263
 
2.1
280
 
2.0
307
 
1.0
2760
bioCycPlugin
0.9
2604
BiogridPlugin
0.2
997
 
0.1
3843
BiomartClient
0.90
2782
 
0.80
6518
BioNetBuilder
2.0
5723
BioQualiPlugin
2.0
1250
 
1.1
1698
 
1.0
1256
BisoGenet
1.41
2829
 
1.40
960
BLAST2SimilarityGraph
1.01
2757
 
1.0
2120
BNMatch
1.1
631
 
1.0
388
BubbleRouter
1.1
3361
 
1.0
2595
CABIN
2.1
2935
CalculateNodeDegree
1.0
1495
CARLSBAD
1.1
391
 
1.0
71
CellFateScout
0.95
122
CentiScaPe
1.21
2577
 
1.2
2095
 
1.1
1574
 
1.0
3620
ChartPlugin
1.1
717
 
1.0
358
ChemViz
1.3
353
 
1.1
2004
ClojureEngine
1.0
351
ClueGO
1.8
1726
 
1.71
631
 
1.7
198
 
1.6
103
 
1.5
313
 
1.4
2758
 
1.31
1326
 
1.3
1591
 
1.2
1888
 
1.1
1588
CluePedia
1.3
675
 
1.21
295
 
1.2
63
 
1.1
49
 
1.0
149
clusterExplorerPlugin
1.01
1790
 
1.0
1709
 
0.9
1786
clusterMaker
1.9
3669
 
1.8
823
 
1.6
3002
 
1.5
808
 
1.11
1638
 
1.10
5121
 
1.1
1841
 
1.0
2424
ClusterONE
0.93
2454
 
0.92
650
 
0.91
1220
 
0.9
891
 
0.1
912
ClusterViz
1.2
2997
 
1.1
1277
 
1.0
1363
ClustnSee
1.0
1222
COMA
1.101
2043
 
1.1
1182
 
1.0
1212
commandTool
0.91
1875
 
0.9
1043
CommFinder
1.1
1452
CommonAttributes
2.0
1961
 
1.3
1335
ConReg
0.1
369
ConsensusPathDBplugin
1.0
1770
ContigScape
1.0
391
coreCommands
0.9
1220
CoryneRegNetLoader
1.101
1618
 
1.1
1231
 
1.0
1062
CyAnimator
0.9
2675
CyClus3D
3.3
1204
 
3.1
639
CyGoose
2.9
971
 
2.8
775
 
2.7
1204
 
2.6
1320
 
2.5
1195
 
2.10
799
CyKEGGParser
1.3
663
 
1.1
387
 
1.0
333
Cyrface
1.0
609
 
0.2
447
CySBGN
1.2
706
 
1.1
161
 
1.0
351
CySBML
1.2
1474
cySBML
0.5
0
CyTableReaderPlugin
0.1
453
CyTargetLinker
2.1
816
 
2.0
709
 
1.0
866
CyThesaurus-ID-Mapping
1.31
2757
 
1.30
193
 
1.20
788
 
1.11
894
 
1.10
454
 
1.04
704
 
1.03
530
 
1.02
12
 
1.01
58
 
1.0
12
CytoCopteR
1.2
425
 
1.1
373
 
1.0
380
CytoHiCPlugin
1.1
375
 
1.0
446
cytoHubba
1.6
3078
 
1.5
812
 
1.4
733
 
1.3
389
 
1.2
619
 
1.1
1735
 
1.0
1318
CytoITMprobe
1.5
530
 
1.4
314
CytoKavosh
1.1
1424
 
1.0
436
Cytomcl
1.1
1289
 
1.1
1632
 
1.0
956
 
1.0
0
Cytoprophet
1.0
3279
CytoSaddleSum
1.5
830
 
1.4
415
CytoscapeRPC
1.8
4124
 
1.7
721
 
1.6
744
 
1.5
449
 
1.4
448
 
1.3
644
 
1.2
679
 
1.1
464
 
1.0
713
CytoSEED
1.1
524
 
1.0
136
CytoSeVis
1.0
592
CytoSQL
1.0
1341
 
0.9
820
DisGeNET
1.02
0
DisplayNetworkFromFlatFile
1.0
1159
DomainGraph
3.01
1685
 
2.01
1760
 
2.0
750
DroID
1.0
2085
DualLayout
0.01
1195
DvD
1.0
245
dynamicXpr
1.3
3030
 
1.2
1893
edgeLengthPlugin
1.1
1795
 
1.0
1346
edgeLister
1.2
1209
 
1.1
1518
EnhancedSearch
1.2
3356
 
1.1
3453
 
1.0
1539
EnrichmentMap
1.3
938
 
1.2
4718
 
1.1
1022
 
1.0
814
ENViz
1.1
726
 
1.0
467
ExprEssence
1.20
1425
ExpressionCorrelation
1.01
4683
 
1.0
1408
FluxViz
0.12
917
 
0.09
592
FM3
1.1
1739
FNodeAtt
0.9
339
FunNetViz
1.0
1226
GALANT
1.0
0
GASOLINE
1.0
405
GeneMANIA
3.2
2822
 
3.1
563
 
3.0
341
 
2.5
1328
 
2.4
884
 
2.3
573
 
2.2
1067
 
2.1
892
 
2.0
836
 
1.0
822
GenomeSpaceLibsPlugin
0.1
193
GenomeSpacePlugin
0.1
524
Genoscape
1.2
2525
 
1.11
1143
 
1.1
945
GESTODifferent
1.0
0
GFD-Net
1.0
427
GIANT
1.0
0
GoogleChartFunctions
1.1
2402
GPEC
1.1
1044
GPML-Plugin
1.4
1492
 
1.3
1573
 
1.2
1210
 
1.1
945
 
1.0
684
 
0.9
760
 
0.8
1037
 
0.7
676
 
0.6
697
 
0.5
582
 
0.4
755
 
0.3
1209
 
0.2
1054
 
0.1
1077
GraMoFoNe
0.12
565
GraphletCounter
1.2
1379
 
1.0
780
GraphMLReader
0.11
3241
GroovyEngine
1.0
438
GroovyScriptingEngine
0.11
947
GroupTool
1.3
1348
 
1.2
1730
 
1.1
1284
 
1.0
1559
HiderSlider
1.0
2297
HOMECAT
1.2
362
 
1.1
111
 
1.0
190
HyperEdgeEditor
2.68
1141
 
2.66
1175
 
2.65
773
 
2.62
1716
 
2.61
1473
 
2.60
1124
 
2.56
593
 
2.53
395
iCTNet
0.1
878
IDSwitcher
1.0
782
IgraphPlugin
0.1
938
IntActWSClient
0.66
2292
Interference
1.0
1080
iRefScape
1.18
1682
 
1.17
231
 
1.16
304
 
0.90
717
 
0.89
414
 
0.88
244
 
0.87
260
 
0.86
275
 
0.82
346
iRegulon
1.3
70
 
1.2
80
 
1.1
283
 
1.0
36
jActiveModules
2.23
8767
 
2.22
1482
 
2.21
1480
 
2.2
5474
JavaScriptEngine
1.0
968
 
0.11
1081
KeyPathwayMiner
4.0
399
 
3.0
1773
 
2.1
561
 
2.0
362
 
1.0
514
KGMLReader
0.151
2313
 
0.15
1876
 
0.11
423
 
0.10
1221
 
0.06
1509
KNIMEConnector
1.1
839
 
1.0
720
LayoutSaverPlugin
1.0
1159
Mark
2
0
mcl-new
1.1
546
MCODE
1.32
9545
 
1.31
6313
 
1.3
6627
 
1.2
2874
MetaNetter
2.1
2460
MetaNodePlugin2
1.6
1782
 
1.5
1313
 
1.2
1714
 
1.1
1289
 
1.01
1392
 
1.0
1276
MetScape
2.33
2087
 
2.32
1422
 
2.31
1384
 
2.3
670
 
2.21
186
 
2.2
17
 
2.11
373
 
2.0
252
 
1.01
1754
 
1.0
1099
 
0.8
1558
MiMIplugin
3.11
5816
 
3.1
1020
 
3.01
4032
 
3.0
1595
 
2.2
1767
 
2.1
1553
 
2.0
1524
MINE
1.5
1797
 
1.0
889
MiSink
2.04
1732
 
2.03
1171
 
2.00
1427
ModuLand
1.5
0
 
1.4
0
MONET
2.1
1323
 
2.01
895
 
1.1
1903
Mosaic
1.1
1152
 
1.0
1358
MostHighlyConnectedSubgraphPlugin
1.0
515
MultiColoredNodes
2.540
1501
 
2.533
179
 
2.500
779
 
2.432
321
MultilevelLayoutPlugin
0.6
1920
 
0.41
1807
 
0.4
307
NamedSelection
1.5
1256
 
1.2
1787
 
1.1
1332
 
1.0
2238
NatureProtocolsWorkflow
1.0
3201
NCBIClient
0.92
2769
 
0.70
7309
NCBIEntrezGeneUserInterface
0.52
11241
NDBReaderPlugin
0.1
575
NeighborHighlight
1.0
4406
NeMo
1.4
3486
 
1.3
1197
NetAtlas
1.2
916
 
1.1
1380
NetCirChro
1.0
640
NetDS
3.0
1084
NetLink
0.1
2237
netMatch
2.2
1880
 
2.1
2351
NetTwo
0.1
500
NetworkEvolution
2.1
1051
NetworkPrioritizer
1.01
0
NOA
1.1
1247
 
1.0
355
nodeCharts
0.94
2793
 
0.92
707
 
0.91
691
 
0.91
18
OrthoNets
1.0
1197
OWLPlugin
1.0
1153
PanGIA
1.1
1453
 
1.0
606
Pathintegrator
1.0
1699
PerturbationAnalyzer
1.2
1401
 
1.1
424
 
1.0
664
 
0.2
508
 
0.1
658
PhosphositePlus Web Service Client Module
1.0
0
PhyloTree
0.1
1676
PICRClient
0.2
1796
PINA4MS
1.1
180
 
1.0
209
PiNGO
1.11
3577
 
1.10
858
 
1.00
1293
PinnacleZ
1.1
1895
 
1.0
1274
PSICQUICUniversalClient
0.31
1839
 
0.25
3416
PythonScriptingEngine
2.53
587
 
0.21
1757
RandomNetworks
1.0
5174
Reactome FIs
1.1
0
 
1.0beta
0
 
1.0
0
RemainingDegreeDistribution
1.0
885
ReOrientPlugin
1.0
1816
 
0.3
991
RINalyzer
1.3
0
RubyScriptingEngine
1.7
262
 
1.0
522
 
0.21
859
ScriptEngineManager
1.0
1140
 
0.08
1747
SessionForWeb
3.2
1091
 
3.1
1407
 
3.0
1098
SFLDLoader
1.3
1509
 
1.2
1269
 
1.0
1406
ShortestPath Plugin
1.1
5848
SimBoolNet
1.0
358
SimTrek
1.0
683
SLiMScape
1.6
610
 
1.5
149
 
1.2
137
 
1.0
132
SPNConverter
1.0
320
STOP
1.0
582
StringWSClient
1.2
4484
 
1.1
1530
 
1.0
1061
structureViz
1.9
1736
 
1.3
2120
 
1.2
1385
 
1.0
1764
SubnetworkCreator
1.2
762
 
1.1
482
 
1.0
1191
Superpathways-Plugin
1.2
1572
 
1.0
1237
TransClust
1.01
1541
 
1.0
1729
VennDiagramGenerator
1.4
2655
 
1.02
1617
 
1.0
1306
VennDiagrams
0.5
947
 
0.3
1241
Viacomplex for Cytoscape
1.0
0
VistaClaraPlugin
1.05
3410
 
1.02
1858
 
1.01
2324
 
1.0
1470
 
0.20
180
WordCloud
1.0
1779
 
1.0
0