Since the release of Cytoscape 2.5 (July 2007), there are 114616 users (distinct IP addresses) downloaded plugins from this site. Total download count is 913891.

 

Plugin Name
version
Total download

Total downlaod

last 30 days

3DScape
0.4
0
 
0.2
0
3DScapeCS
0.6
2331
addParentNeighbors
1.0
1933
AdvancedNetworkMerge
1.12
2414
 
1.10
2080
 
1.05
714
 
1.04
445
AgilentLiteratureSearch
2.78
5826
 
2.77
65508
 
2.76
7283
 
2.71
10465
 
2.70
28348
 
2.69
3196
 
2.68
5274
 
2.55
11193
 
2.54
385
AllegroLayout
1.1
925
 
1.0
275
AllegroMCODE
2.1
1929
 
2.0
444
 
1.0
4418
AlternativeTableImport
1.3
762
 
1.2
461
 
1.1
428
 
1.0
472
APCluster
2.1
2224
APID2NET
1.52
6425
 
1.51
1906
 
1.5
2255
ARMember – Membership & User profile Plugin
1.0
0
batchTool
1.0
1743
 
0.5
1313
BiNAT
1.0
0
BiNGO
2.44
23918
 
2.42
3741
 
2.31
6381
 
2.3
16341
 
2.1
9370
 
2.0
1053
BiNoM
2.5
1061
 
2.4
31
 
2.3
104
 
2.2
264
 
2.1
281
 
2.0
307
 
1.0
2947
bioCycPlugin
0.9
2901
BiogridPlugin
0.2
1126
 
0.1
4195
BiomartClient
0.90
2960
 
0.80
6689
BioNetBuilder
2.0
5904
BioQualiPlugin
2.0
1422
 
1.1
2095
 
1.0
1354
BisoGenet
1.41
3129
 
1.40
1239
BLAST2SimilarityGraph
1.01
3270
 
1.0
2366
BNMatch
1.1
757
 
1.0
551
BubbleRouter
1.1
3552
 
1.0
2897
CABIN
2.1
3388
CalculateNodeDegree
1.0
1664
CARLSBAD
1.1
398
 
1.0
73
CellFateScout
0.95
301
CentiScaPe
1.21
2809
 
1.2
2217
 
1.1
1652
 
1.0
3691
ChartPlugin
1.1
840
 
1.0
552
ChemViz
1.3
364
 
1.1
2064
ClojureEngine
1.0
474
ClueGO
1.8
1894
 
1.71
634
 
1.7
199
 
1.6
104
 
1.5
313
 
1.4
2785
 
1.31
1330
 
1.3
1595
 
1.2
1892
 
1.1
1597
CluePedia
1.3
718
 
1.21
298
 
1.2
66
 
1.1
53
 
1.0
153
clusterExplorerPlugin
1.01
1971
 
1.0
1888
 
0.9
1999
clusterMaker
1.9
3835
 
1.8
1245
 
1.6
3255
 
1.5
935
 
1.11
1770
 
1.10
5553
 
1.1
1992
 
1.0
2643
ClusterONE
0.93
2646
 
0.92
877
 
0.91
1409
 
0.9
1093
 
0.1
1164
ClusterViz
1.2
3216
 
1.1
1477
 
1.0
1599
ClustnSee
1.0
1600
COMA
1.101
2205
 
1.1
1308
 
1.0
1351
commandTool
0.91
2036
 
0.9
1206
CommFinder
1.1
1890
CommonAttributes
2.0
2109
 
1.3
1464
ConReg
0.1
445
ConsensusPathDBplugin
1.0
2047
ContigScape
1.0
570
coreCommands
0.9
1403
CoryneRegNetLoader
1.101
1831
 
1.1
1409
 
1.0
1171
CyAnimator
0.9
2845
CyClus3D
3.3
1400
 
3.1
830
CyGoose
2.9
1141
 
2.8
885
 
2.7
1386
 
2.6
1489
 
2.5
1360
 
2.10
939
CyKEGGParser
1.3
978
 
1.1
682
 
1.0
625
Cyrface
1.0
1214
 
0.2
618
CySBGN
1.2
1017
 
1.1
210
 
1.0
541
CySBML
1.2
1899
cySBML
0.5
0
CyTableReaderPlugin
0.1
598
CyTargetLinker
2.1
1173
 
2.0
967
 
1.0
1092
CyThesaurus-ID-Mapping
1.31
3244
 
1.30
552
 
1.20
861
 
1.11
1013
 
1.10
504
 
1.04
830
 
1.03
734
 
1.02
12
 
1.01
58
 
1.0
12
CytoCopteR
1.2
760
 
1.1
430
 
1.0
508
CytoHiCPlugin
1.1
616
 
1.0
588
cytoHubba
1.6
3474
 
1.5
957
 
1.4
865
 
1.3
519
 
1.2
840
 
1.1
1911
 
1.0
1491
CytoITMprobe
1.5
651
 
1.4
455
CytoKavosh
1.1
1727
 
1.0
586
Cytomcl
1.1
1417
 
1.1
1771
 
1.0
1148
 
1.0
0
Cytoprophet
1.0
3500
CytoSaddleSum
1.5
922
 
1.4
548
CytoscapeRPC
1.8
5022
 
1.7
848
 
1.6
882
 
1.5
578
 
1.4
599
 
1.3
766
 
1.2
799
 
1.1
566
 
1.0
982
CytoSEED
1.1
615
 
1.0
202
CytoSeVis
1.0
755
CytoSQL
1.0
1561
 
0.9
948
DisGeNET
1.02
0
DisplayNetworkFromFlatFile
1.0
1324
DomainGraph
3.01
1888
 
2.01
1837
 
2.0
865
Dr. Shashikumar N.g
cytoscape 3.4.0
0
Dr.Shashikumar N.G.
2.x
0
DroID
1.0
2415
DualLayout
0.01
1355
DvD
1.0
282
dynamicXpr
1.3
3249
 
1.2
2062
edgeLengthPlugin
1.1
1965
 
1.0
1443
edgeLister
1.2
1211
 
1.1
1652
EnhancedSearch
1.2
3585
 
1.1
3672
 
1.0
1708
EnrichmentMap
1.3
1277
 
1.2
4865
 
1.1
1144
 
1.0
1007
ENViz
1.1
1218
 
1.0
822
ExprEssence
1.20
1638
ExpressionCorrelation
1.01
5009
 
1.0
1614
FluxViz
0.12
1044
 
0.09
871
FM3
1.1
2092
FNodeAtt
0.9
495
FreemakeSliderPlugin
1.0
0
FunNetViz
1.0
1290
GALANT
1.0
0
GASOLINE
1.0
696
GeneMANIA
3.2
3121
 
3.1
840
 
3.0
681
 
2.5
1620
 
2.4
1250
 
2.3
992
 
2.2
1417
 
2.1
899
 
2.0
842
 
1.0
830
GenomeSpaceLibsPlugin
0.1
204
GenomeSpacePlugin
0.1
747
Genoscape
1.2
2783
 
1.11
1265
 
1.1
1090
GESTODifferent
1.0
0
GFD-Net
1.0
668
GIANT
1.0
0
GoldenTabs
21
0
GoogleChartFunctions
1.1
2656
GPEC
1.1
1396
GPML-Plugin
1.4
2103
 
1.3
1639
 
1.2
1499
 
1.1
1143
 
1.0
859
 
0.9
843
 
0.8
1170
 
0.7
805
 
0.6
849
 
0.5
732
 
0.4
889
 
0.3
1407
 
0.2
1249
 
0.1
1322
GraMoFoNe
0.12
667
GraphletCounter
1.2
1609
 
1.0
982
GraphMLReader
0.11
3983
GroovyEngine
1.0
677
GroovyScriptingEngine
0.11
1366
GroupTool
1.3
1604
 
1.2
1906
 
1.1
1428
 
1.0
1707
HiderSlider
1.0
2433
HOMECAT
1.2
436
 
1.1
154
 
1.0
245
HyperEdgeEditor
2.68
1382
 
2.66
1357
 
2.65
904
 
2.62
1884
 
2.61
1638
 
2.60
1305
 
2.56
596
 
2.53
396
iCTNet
0.1
1164
IDSwitcher
1.0
914
IgraphPlugin
0.1
1179
IntActWSClient
0.66
2495
Interference
1.0
1501
iRefScape
1.18
1941
 
1.17
319
 
1.16
454
 
0.90
820
 
0.89
505
 
0.88
352
 
0.87
361
 
0.86
459
 
0.82
495
iRegulon
1.3
124
 
1.2
84
 
1.1
285
 
1.0
41
jActiveModules
2.23
9085
 
2.22
1606
 
2.21
1605
 
2.2
5652
JavaScriptEngine
1.0
1116
 
0.11
1245
KeyPathwayMiner
4.0
598
 
3.0
1958
 
2.1
789
 
2.0
460
 
1.0
718
KGMLReader
0.151
2712
 
0.15
2086
 
0.11
610
 
0.10
1397
 
0.06
1693
KNIMEConnector
1.1
1172
 
1.0
882
LayoutSaverPlugin
1.0
1351
Mark
2
0
mcl-new
1.1
717
MCODE
1.32
10004
 
1.31
6478
 
1.3
6950
 
1.2
3081
MetaNetter
2.1
2775
MetaNodePlugin2
1.6
1981
 
1.5
1432
 
1.2
1881
 
1.1
1407
 
1.01
1501
 
1.0
1414
MetScape
2.33
2448
 
2.32
1961
 
2.31
1687
 
2.3
1005
 
2.21
186
 
2.2
21
 
2.11
375
 
2.0
256
 
1.01
1971
 
1.0
1295
 
0.8
1797
MiMIplugin
3.11
6210
 
3.1
1206
 
3.01
4250
 
3.0
1721
 
2.2
1911
 
2.1
1694
 
2.0
1686
MINE
1.5
2073
 
1.0
1028
MiSink
2.04
1998
 
2.03
1378
 
2.00
1604
ModuLand
1.5
0
 
1.4
0
MONET
2.1
1565
 
2.01
895
 
1.1
2051
Mosaic
1.1
1455
 
1.0
1436
MostHighlyConnectedSubgraphPlugin
1.0
689
MultiColoredNodes
2.540
1927
 
2.533
265
 
2.500
933
 
2.432
482
MultilevelLayoutPlugin
0.6
2071
 
0.41
1958
 
0.4
307
NamedSelection
1.5
1387
 
1.2
1944
 
1.1
1455
 
1.0
2462
NatureProtocolsWorkflow
1.0
3360
NCBIClient
0.92
3040
 
0.70
7671
NCBIEntrezGeneUserInterface
0.52
11425
NDBReaderPlugin
0.1
772
NeighborHighlight
1.0
4839
NeMo
1.4
3746
 
1.3
1344
NetAtlas
1.2
1121
 
1.1
1526
NetCirChro
1.0
891
NetDS
3.0
1336
NetLink
0.1
2355
netMatch
2.2
2106
 
2.1
2517
NetTwo
0.1
687
NetworkEvolution
2.1
1204
NetworkPrioritizer
1.01
0
NOA
1.1
1730
 
1.0
521
nodeCharts
0.94
3155
 
0.92
870
 
0.91
839
 
0.91
18
OrthoNets
1.0
1385
OWLPlugin
1.0
1313
PanGIA
1.1
1741
 
1.0
773
Pathintegrator
1.0
1771
PerturbationAnalyzer
1.2
1604
 
1.1
514
 
1.0
805
 
0.2
662
 
0.1
740
PhosphositePlus Web Service Client Module
1.0
0
PhyloTree
0.1
2004
PICRClient
0.2
1985
PINA4MS
1.1
396
 
1.0
409
PiNGO
1.11
3931
 
1.10
1035
 
1.00
1503
PinnacleZ
1.1
2083
 
1.0
1388
PSICQUICUniversalClient
0.31
2175
 
0.25
3925
PushMonkey
2.2
0
PythonScriptingEngine
2.53
609
 
0.21
1997
RandomNetworks
1.0
5599
Reactome FIs
1.1
0
 
1.0beta
0
 
1.0
0
RemainingDegreeDistribution
1.0
1061
ReOrientPlugin
1.0
2072
 
0.3
1110
RINalyzer
1.3
0
RubyScriptingEngine
1.7
269
 
1.0
624
 
0.21
1093
ScriptEngineManager
1.0
1256
 
0.08
1893
SessionForWeb
3.2
1258
 
3.1
1556
 
3.0
1223
SFLDLoader
1.3
1676
 
1.2
1443
 
1.0
1551
Shashikumar
3.4.0
0
ShortestPath Plugin
1.1
6328
SimBoolNet
1.0
411
SimTrek
1.0
958
SLiMScape
1.6
789
 
1.5
211
 
1.2
198
 
1.0
272
SPNConverter
1.0
480
STOP
1.0
773
StringWSClient
1.2
4803
 
1.1
1682
 
1.0
1205
structureViz
1.9
1920
 
1.3
2265
 
1.2
1503
 
1.0
1909
SubnetworkCreator
1.2
1025
 
1.1
599
 
1.0
1347
Sudy
2.9.3
0
Superpathways-Plugin
1.2
1914
 
1.0
1625
TransClust
1.01
1804
 
1.0
2032
VennDiagramGenerator
1.4
2940
 
1.02
1788
 
1.0
1494
VennDiagrams
0.5
1111
 
0.3
1392
Viacomplex for Cytoscape
1.0
0
VistaClaraPlugin
1.05
3910
 
1.02
2071
 
1.01
2476
 
1.0
1679
 
0.20
180
WordCloud
1.0
2108
 
1.0
0