Since the release of Cytoscape 2.5 (July 2007), there are 105323 users (distinct IP addresses) downloaded plugins from this site. Total download count is 778865.

 

Plugin Name
version
Total download

Total downlaod

last 30 days

3DScape
0.4
0
 
0.2
0
3DScapeCS
0.6
1918
addParentNeighbors
1.0
1859
AdvancedNetworkMerge
1.12
2233
 
1.10
1893
 
1.05
714
 
1.04
445
AgilentLiteratureSearch
2.78
4481
 
2.77
17015
 
2.76
6058
 
2.71
6020
 
2.70
8038
 
2.69
1489
 
2.68
3036
 
2.55
8763
 
2.54
382
AllegroLayout
1.1
794
 
1.0
174
AllegroMCODE
2.1
1872
 
2.0
417
 
1.0
4236
AlternativeTableImport
1.3
578
 
1.2
301
 
1.1
280
 
1.0
305
APCluster
2.1
2044
APID2NET
1.52
6264
 
1.51
1799
 
1.5
2142
batchTool
1.0
1638
 
0.5
1238
BiNAT
1.0
0
BiNGO
2.44
23784
 
2.42
3732
 
2.31
6346
 
2.3
16311
 
2.1
9341
 
2.0
1052
BiNoM
2.5
977
 
2.4
31
 
2.3
104
 
2.2
264
 
2.1
280
 
2.0
307
 
1.0
2791
bioCycPlugin
0.9
2695
BiogridPlugin
0.2
1056
 
0.1
3989
BiomartClient
0.90
2837
 
0.80
6581
BioNetBuilder
2.0
5747
BioQualiPlugin
2.0
1273
 
1.1
1935
 
1.0
1273
BisoGenet
1.41
3075
 
1.40
1196
BLAST2SimilarityGraph
1.01
2933
 
1.0
2198
BNMatch
1.1
680
 
1.0
452
BubbleRouter
1.1
3416
 
1.0
2665
CABIN
2.1
3199
CalculateNodeDegree
1.0
1577
CARLSBAD
1.1
395
 
1.0
71
CellFateScout
0.95
147
CentiScaPe
1.21
2630
 
1.2
2119
 
1.1
1596
 
1.0
3640
ChartPlugin
1.1
750
 
1.0
390
ChemViz
1.3
360
 
1.1
2029
ClojureEngine
1.0
371
ClueGO
1.8
1813
 
1.71
634
 
1.7
199
 
1.6
103
 
1.5
313
 
1.4
2769
 
1.31
1328
 
1.3
1593
 
1.2
1890
 
1.1
1591
CluePedia
1.3
697
 
1.21
296
 
1.2
65
 
1.1
52
 
1.0
152
clusterExplorerPlugin
1.01
1842
 
1.0
1732
 
0.9
1836
clusterMaker
1.9
3694
 
1.8
1107
 
1.6
3074
 
1.5
848
 
1.11
1672
 
1.10
5289
 
1.1
1882
 
1.0
2500
ClusterONE
0.93
2496
 
0.92
703
 
0.91
1262
 
0.9
962
 
0.1
987
ClusterViz
1.2
3179
 
1.1
1347
 
1.0
1429
ClustnSee
1.0
1338
COMA
1.101
2108
 
1.1
1222
 
1.0
1272
commandTool
0.91
1932
 
0.9
1081
CommFinder
1.1
1601
CommonAttributes
2.0
2008
 
1.3
1382
ConReg
0.1
384
ConsensusPathDBplugin
1.0
1898
ContigScape
1.0
432
coreCommands
0.9
1285
CoryneRegNetLoader
1.101
1699
 
1.1
1306
 
1.0
1095
CyAnimator
0.9
2737
CyClus3D
3.3
1262
 
3.1
705
CyGoose
2.9
1039
 
2.8
801
 
2.7
1271
 
2.6
1348
 
2.5
1218
 
2.10
844
CyKEGGParser
1.3
903
 
1.1
624
 
1.0
574
Cyrface
1.0
911
 
0.2
517
CySBGN
1.2
803
 
1.1
177
 
1.0
375
CySBML
1.2
1786
cySBML
0.5
0
CyTableReaderPlugin
0.1
484
CyTargetLinker
2.1
913
 
2.0
775
 
1.0
935
CyThesaurus-ID-Mapping
1.31
2900
 
1.30
221
 
1.20
808
 
1.11
913
 
1.10
472
 
1.04
747
 
1.03
554
 
1.02
12
 
1.01
58
 
1.0
12
CytoCopteR
1.2
673
 
1.1
399
 
1.0
402
CytoHiCPlugin
1.1
447
 
1.0
491
cytoHubba
1.6
3241
 
1.5
856
 
1.4
766
 
1.3
420
 
1.2
674
 
1.1
1768
 
1.0
1383
CytoITMprobe
1.5
558
 
1.4
356
CytoKavosh
1.1
1522
 
1.0
473
Cytomcl
1.1
1648
 
1.1
1331
 
1.0
0
 
1.0
1023
Cytoprophet
1.0
3364
CytoSaddleSum
1.5
858
 
1.4
442
CytoscapeRPC
1.8
4549
 
1.7
774
 
1.6
799
 
1.5
487
 
1.4
505
 
1.3
694
 
1.2
725
 
1.1
498
 
1.0
794
CytoSEED
1.1
555
 
1.0
151
CytoSeVis
1.0
661
CytoSQL
1.0
1386
 
0.9
840
DisGeNET
1.02
0
DisplayNetworkFromFlatFile
1.0
1225
DomainGraph
3.01
1737
 
2.01
1777
 
2.0
767
DroID
1.0
2198
DualLayout
0.01
1255
DvD
1.0
262
dynamicXpr
1.3
3123
 
1.2
1964
edgeLengthPlugin
1.1
1852
 
1.0
1377
edgeLister
1.2
1211
 
1.1
1561
EnhancedSearch
1.2
3420
 
1.1
3526
 
1.0
1560
EnrichmentMap
1.3
1047
 
1.2
4756
 
1.1
1060
 
1.0
875
ENViz
1.1
1051
 
1.0
704
ExprEssence
1.20
1459
ExpressionCorrelation
1.01
4773
 
1.0
1465
FluxViz
0.12
930
 
0.09
643
FM3
1.1
1884
FNodeAtt
0.9
409
FreemakeSliderPlugin
1.0
0
FunNetViz
1.0
1261
GALANT
1.0
0
GASOLINE
1.0
509
GeneMANIA
3.2
3055
 
3.1
795
 
3.0
563
 
2.5
1553
 
2.4
1123
 
2.3
813
 
2.2
1299
 
2.1
896
 
2.0
839
 
1.0
827
GenomeSpaceLibsPlugin
0.1
202
GenomeSpacePlugin
0.1
597
Genoscape
1.2
2601
 
1.11
1184
 
1.1
996
GESTODifferent
1.0
0
GFD-Net
1.0
484
GIANT
1.0
0
GoogleChartFunctions
1.1
2479
GPEC
1.1
1318
GPML-Plugin
1.4
1675
 
1.3
1595
 
1.2
1262
 
1.1
970
 
1.0
718
 
0.9
773
 
0.8
1053
 
0.7
695
 
0.6
719
 
0.5
609
 
0.4
769
 
0.3
1246
 
0.2
1089
 
0.1
1116
GraMoFoNe
0.12
578
GraphletCounter
1.2
1466
 
1.0
851
GraphMLReader
0.11
3535
GroovyEngine
1.0
645
GroovyScriptingEngine
0.11
1188
GroupTool
1.3
1456
 
1.2
1795
 
1.1
1345
 
1.0
1623
HiderSlider
1.0
2349
HOMECAT
1.2
396
 
1.1
126
 
1.0
208
HyperEdgeEditor
2.68
1220
 
2.66
1246
 
2.65
812
 
2.62
1763
 
2.61
1543
 
2.60
1200
 
2.56
593
 
2.53
395
iCTNet
0.1
960
IDSwitcher
1.0
820
IgraphPlugin
0.1
985
IntActWSClient
0.66
2358
Interference
1.0
1325
iRefScape
1.18
1752
 
1.17
257
 
1.16
318
 
0.90
731
 
0.89
437
 
0.88
261
 
0.87
272
 
0.86
298
 
0.82
370
iRegulon
1.3
101
 
1.2
83
 
1.1
283
 
1.0
40
jActiveModules
2.23
8862
 
2.22
1524
 
2.21
1521
 
2.2
5518
JavaScriptEngine
1.0
1024
 
0.11
1112
KeyPathwayMiner
4.0
449
 
3.0
1824
 
2.1
613
 
2.0
388
 
1.0
544
KGMLReader
0.151
2475
 
0.15
1933
 
0.11
486
 
0.10
1268
 
0.06
1545
KNIMEConnector
1.1
991
 
1.0
763
LayoutSaverPlugin
1.0
1247
Mark
2
0
mcl-new
1.1
566
MCODE
1.32
9725
 
1.31
6355
 
1.3
6743
 
1.2
2931
MetaNetter
2.1
2586
MetaNodePlugin2
1.6
1847
 
1.5
1346
 
1.2
1779
 
1.1
1324
 
1.01
1430
 
1.0
1346
MetScape
2.33
2349
 
2.32
1751
 
2.31
1628
 
2.3
928
 
2.21
186
 
2.2
20
 
2.11
374
 
2.0
255
 
1.01
1800
 
1.0
1143
 
0.8
1630
MiMIplugin
3.11
5962
 
3.1
1094
 
3.01
4105
 
3.0
1636
 
2.2
1808
 
2.1
1596
 
2.0
1591
MINE
1.5
1898
 
1.0
923
MiSink
2.04
1819
 
2.03
1237
 
2.00
1469
ModuLand
1.5
0
 
1.4
0
MONET
2.1
1373
 
2.01
895
 
1.1
1924
Mosaic
1.1
1263
 
1.0
1391
MostHighlyConnectedSubgraphPlugin
1.0
566
MultiColoredNodes
2.540
1648
 
2.533
200
 
2.500
804
 
2.432
344
MultilevelLayoutPlugin
0.6
1967
 
0.41
1873
 
0.4
307
NamedSelection
1.5
1297
 
1.2
1846
 
1.1
1371
 
1.0
2313
NatureProtocolsWorkflow
1.0
3270
NCBIClient
0.92
2844
 
0.70
7547
NCBIEntrezGeneUserInterface
0.52
11306
NDBReaderPlugin
0.1
627
NeighborHighlight
1.0
4544
NeMo
1.4
3587
 
1.3
1236
NetAtlas
1.2
968
 
1.1
1430
NetCirChro
1.0
838
NetDS
3.0
1142
NetLink
0.1
2269
netMatch
2.2
1935
 
2.1
2370
NetTwo
0.1
546
NetworkEvolution
2.1
1087
NetworkPrioritizer
1.01
0
NOA
1.1
1390
 
1.0
431
nodeCharts
0.94
2937
 
0.92
750
 
0.91
751
 
0.91
18
OrthoNets
1.0
1230
OWLPlugin
1.0
1217
PanGIA
1.1
1536
 
1.0
677
Pathintegrator
1.0
1725
PerturbationAnalyzer
1.2
1443
 
1.1
453
 
1.0
688
 
0.2
536
 
0.1
682
PhosphositePlus Web Service Client Module
1.0
0
PhyloTree
0.1
1760
PICRClient
0.2
1884
PINA4MS
1.1
212
 
1.0
257
PiNGO
1.11
3687
 
1.10
885
 
1.00
1350
PinnacleZ
1.1
1965
 
1.0
1309
PSICQUICUniversalClient
0.31
2082
 
0.25
3743
PythonScriptingEngine
2.53
604
 
0.21
1966
RandomNetworks
1.0
5346
Reactome FIs
1.1
0
 
1.0beta
0
 
1.0
0
RemainingDegreeDistribution
1.0
959
ReOrientPlugin
1.0
1926
 
0.3
1040
RINalyzer
1.3
0
RubyScriptingEngine
1.7
266
 
1.0
610
 
0.21
1065
ScriptEngineManager
1.0
1179
 
0.08
1787
SessionForWeb
3.2
1154
 
3.1
1466
 
3.0
1135
SFLDLoader
1.3
1555
 
1.2
1324
 
1.0
1446
ShortestPath Plugin
1.1
6011
SimBoolNet
1.0
385
SimTrek
1.0
730
SLiMScape
1.6
658
 
1.5
167
 
1.2
159
 
1.0
148
SPNConverter
1.0
361
STOP
1.0
667
StringWSClient
1.2
4608
 
1.1
1565
 
1.0
1123
structureViz
1.9
1803
 
1.3
2166
 
1.2
1419
 
1.0
1828
SubnetworkCreator
1.2
876
 
1.1
528
 
1.0
1246
Sudy
2.9.3
0
Superpathways-Plugin
1.2
1828
 
1.0
1478
TransClust
1.01
1599
 
1.0
1851
VennDiagramGenerator
1.4
2767
 
1.02
1667
 
1.0
1378
VennDiagrams
0.5
973
 
0.3
1265
Viacomplex for Cytoscape
1.0
0
VistaClaraPlugin
1.05
3612
 
1.02
1905
 
1.01
2355
 
1.0
1524
 
0.20
180
WordCloud
1.0
0
 
1.0
1869