Since the release of Cytoscape 2.5 (July 2007), there are 95925 users (distinct IP addresses) downloaded plugins from this site. Total download count is 711114.

 

Plugin Name
version
Total download

Total downlaod

last 30 days

3DScape
0.4
0
 
0.2
0
3DScapeCS
0.6
1597
addParentNeighbors
1.0
1793
AdvancedNetworkMerge
1.12
2113
 
1.10
1739
 
1.05
714
 
1.04
445
AgilentLiteratureSearch
2.78
3460
 
2.77
12316
 
2.76
3047
 
2.71
4384
 
2.70
5449
 
2.69
1460
 
2.68
1470
 
2.55
7403
 
2.54
381
AllegroLayout
1.1
740
 
1.0
153
AllegroMCODE
2.1
1433
 
2.0
107
 
1.0
4178
AlternativeTableImport
1.3
501
 
1.2
253
 
1.1
215
 
1.0
252
APCluster
2.1
1952
APID2NET
1.52
6080
 
1.51
1712
 
1.5
2072
batchTool
1.0
1558
 
0.5
1177
BiNAT
1.0
0
BiNGO
2.44
23398
 
2.42
3592
 
2.31
6033
 
2.3
16003
 
2.1
8972
 
2.0
1052
BiNoM
2.5
847
 
2.4
21
 
2.3
92
 
2.2
255
 
2.1
278
 
2.0
304
 
1.0
2740
bioCycPlugin
0.9
2541
BiogridPlugin
0.2
949
 
0.1
3786
BiomartClient
0.90
2743
 
0.80
6473
BioNetBuilder
2.0
5704
BioQualiPlugin
2.0
1234
 
1.1
1503
 
1.0
1246
BisoGenet
1.41
2648
 
1.40
785
BLAST2SimilarityGraph
1.01
2658
 
1.0
2069
BNMatch
1.1
589
 
1.0
345
BubbleRouter
1.1
3335
 
1.0
2562
CABIN
2.1
2719
CalculateNodeDegree
1.0
1451
CARLSBAD
1.1
388
 
1.0
69
CellFateScout
0.95
114
CentiScaPe
1.21
2549
 
1.2
2085
 
1.1
1556
 
1.0
3609
ChartPlugin
1.1
701
 
1.0
341
ChemViz
1.3
237
 
1.1
1993
ClojureEngine
1.0
336
ClueGO
1.8
1684
 
1.71
625
 
1.7
191
 
1.6
103
 
1.5
313
 
1.4
2747
 
1.31
1319
 
1.3
1587
 
1.2
1888
 
1.1
1555
CluePedia
1.3
664
 
1.21
294
 
1.2
57
 
1.1
43
 
1.0
142
clusterExplorerPlugin
1.01
1767
 
1.0
1695
 
0.9
1766
clusterMaker
1.9
3651
 
1.8
611
 
1.6
2978
 
1.5
789
 
1.11
1622
 
1.10
5068
 
1.1
1822
 
1.0
2398
ClusterONE
0.93
2432
 
0.92
624
 
0.91
1193
 
0.9
844
 
0.1
865
ClusterViz
1.2
2864
 
1.1
1256
 
1.0
1333
ClustnSee
1.0
1173
COMA
1.101
2006
 
1.1
1146
 
1.0
1170
commandTool
0.91
1849
 
0.9
1022
CommFinder
1.1
1367
CommonAttributes
2.0
1935
 
1.3
1312
ConReg
0.1
360
ConsensusPathDBplugin
1.0
1720
ContigScape
1.0
368
coreCommands
0.9
1183
CoryneRegNetLoader
1.101
1571
 
1.1
1180
 
1.0
1038
CyAnimator
0.9
2628
CyClus3D
3.3
1171
 
3.1
621
CyGoose
2.9
932
 
2.8
755
 
2.7
1186
 
2.6
1301
 
2.5
1173
 
2.10
773
CyKEGGParser
1.3
487
 
1.1
202
 
1.0
159
Cyrface
1.0
391
 
0.2
405
CySBGN
1.2
646
 
1.1
156
 
1.0
332
CySBML
1.2
1272
cySBML
0.5
0
CyTableReaderPlugin
0.1
432
CyTargetLinker
2.1
786
 
2.0
674
 
1.0
839
CyThesaurus-ID-Mapping
1.31
2711
 
1.30
175
 
1.20
772
 
1.11
884
 
1.10
443
 
1.04
674
 
1.03
513
 
1.02
12
 
1.01
58
 
1.0
12
CytoCopteR
1.2
232
 
1.1
359
 
1.0
368
CytoHiCPlugin
1.1
347
 
1.0
407
cytoHubba
1.6
2984
 
1.5
771
 
1.4
718
 
1.3
376
 
1.2
590
 
1.1
1707
 
1.0
1282
CytoITMprobe
1.5
520
 
1.4
298
CytoKavosh
1.1
1389
 
1.0
403
Cytomcl
1.1
1616
 
1.1
1271
 
1.0
921
 
1.0
0
Cytoprophet
1.0
3224
CytoSaddleSum
1.5
812
 
1.4
388
CytoscapeRPC
1.8
3935
 
1.7
703
 
1.6
712
 
1.5
428
 
1.4
421
 
1.3
608
 
1.2
655
 
1.1
442
 
1.0
680
CytoSEED
1.1
505
 
1.0
121
CytoSeVis
1.0
545
CytoSQL
1.0
1311
 
0.9
805
DisGeNET
1.02
0
DisplayNetworkFromFlatFile
1.0
1119
DomainGraph
3.01
1660
 
2.01
1745
 
2.0
738
DroID
1.0
2048
DualLayout
0.01
1153
DvD
1.0
235
dynamicXpr
1.3
2968
 
1.2
1847
edgeLengthPlugin
1.1
1754
 
1.0
1327
edgeLister
1.2
1209
 
1.1
1507
EnhancedSearch
1.2
3315
 
1.1
3428
 
1.0
1530
EnrichmentMap
1.3
892
 
1.2
4691
 
1.1
1002
 
1.0
788
ENViz
1.1
499
 
1.0
289
ExprEssence
1.20
1395
ExpressionCorrelation
1.01
4659
 
1.0
1382
FluxViz
0.12
908
 
0.09
563
FM3
1.1
1648
FNodeAtt
0.9
297
FunNetViz
1.0
1213
GALANT
1.0
0
GASOLINE
1.0
372
GeneMANIA
3.2
2663
 
3.1
397
 
3.0
182
 
2.5
1158
 
2.4
719
 
2.3
402
 
2.2
905
 
2.1
772
 
2.0
717
 
1.0
697
GenomeSpaceLibsPlugin
0.1
179
GenomeSpacePlugin
0.1
487
Genoscape
1.2
2485
 
1.11
1108
 
1.1
919
GESTODifferent
1.0
0
GFD-Net
1.0
407
GIANT
1.0
0
GoogleChartFunctions
1.1
2342
GPEC
1.1
884
GPML-Plugin
1.4
1389
 
1.3
1560
 
1.2
1194
 
1.1
920
 
1.0
673
 
0.9
751
 
0.8
1020
 
0.7
660
 
0.6
688
 
0.5
564
 
0.4
745
 
0.3
1188
 
0.2
1037
 
0.1
1053
GraMoFoNe
0.12
552
GraphletCounter
1.2
1317
 
1.0
739
GraphMLReader
0.11
3095
GroovyEngine
1.0
297
GroovyScriptingEngine
0.11
775
GroupTool
1.3
1301
 
1.2
1712
 
1.1
1245
 
1.0
1542
HiderSlider
1.0
2259
HOMECAT
1.2
351
 
1.1
101
 
1.0
174
HyperEdgeEditor
2.68
1104
 
2.66
1139
 
2.65
755
 
2.62
1695
 
2.61
1432
 
2.60
1092
 
2.56
593
 
2.53
395
iCTNet
0.1
843
IDSwitcher
1.0
761
IgraphPlugin
0.1
911
IntActWSClient
0.66
2275
Interference
1.0
895
iRefScape
1.18
1657
 
1.17
220
 
1.16
294
 
0.90
700
 
0.89
390
 
0.88
230
 
0.87
246
 
0.86
254
 
0.82
326
iRegulon
1.3
61
 
1.2
74
 
1.1
280
 
1.0
25
jActiveModules
2.23
8732
 
2.22
1463
 
2.21
1460
 
2.2
5450
JavaScriptEngine
1.0
948
 
0.11
1050
KeyPathwayMiner
4.0
377
 
3.0
1735
 
2.1
534
 
2.0
338
 
1.0
496
KGMLReader
0.151
2245
 
0.15
1843
 
0.11
401
 
0.10
1190
 
0.06
1491
KNIMEConnector
1.1
790
 
1.0
692
LayoutSaverPlugin
1.0
1112
Mark
2
0
mcl-new
1.1
527
MCODE
1.32
9498
 
1.31
6298
 
1.3
6589
 
1.2
2839
MetaNetter
2.1
2408
MetaNodePlugin2
1.6
1744
 
1.5
1294
 
1.2
1691
 
1.1
1266
 
1.01
1367
 
1.0
1241
MetScape
2.33
1875
 
2.32
1193
 
2.31
1203
 
2.3
459
 
2.21
186
 
2.2
17
 
2.11
373
 
2.0
252
 
1.01
1724
 
1.0
1081
 
0.8
1503
MiMIplugin
3.11
5737
 
3.1
987
 
3.01
3990
 
3.0
1573
 
2.2
1746
 
2.1
1526
 
2.0
1480
MINE
1.5
1733
 
1.0
865
MiSink
2.04
1690
 
2.03
1147
 
2.00
1402
ModuLand
1.5
0
 
1.4
0
MONET
2.1
1302
 
2.01
895
 
1.1
1890
Mosaic
1.1
1074
 
1.0
1347
MostHighlyConnectedSubgraphPlugin
1.0
492
MultiColoredNodes
2.540
1434
 
2.533
166
 
2.500
758
 
2.432
310
MultilevelLayoutPlugin
0.6
1905
 
0.41
1766
 
0.4
307
NamedSelection
1.5
1235
 
1.2
1769
 
1.1
1315
 
1.0
2212
NatureProtocolsWorkflow
1.0
3163
NCBIClient
0.92
2739
 
0.70
7139
NCBIEntrezGeneUserInterface
0.52
11211
NDBReaderPlugin
0.1
537
NeighborHighlight
1.0
4349
NeMo
1.4
3439
 
1.3
1173
NetAtlas
1.2
880
 
1.1
1363
NetCirChro
1.0
502
NetDS
3.0
1032
NetLink
0.1
2216
netMatch
2.2
1857
 
2.1
2329
NetTwo
0.1
472
NetworkEvolution
2.1
1034
NetworkPrioritizer
1.01
0
NOA
1.1
1196
 
1.0
329
nodeCharts
0.94
2727
 
0.92
679
 
0.91
652
 
0.91
18
OrthoNets
1.0
1173
OWLPlugin
1.0
1007
PanGIA
1.1
1416
 
1.0
580
Pathintegrator
1.0
1566
PerturbationAnalyzer
1.2
1381
 
1.1
403
 
1.0
652
 
0.2
497
 
0.1
636
PhosphositePlus Web Service Client Module
1.0
0
PhyloTree
0.1
1636
PICRClient
0.2
1752
PINA4MS
1.1
161
 
1.0
193
PiNGO
1.11
3521
 
1.10
820
 
1.00
1267
PinnacleZ
1.1
1865
 
1.0
1245
PSICQUICUniversalClient
0.31
1661
 
0.25
3221
PythonScriptingEngine
2.53
457
 
0.21
1612
RandomNetworks
1.0
5095
Reactome FIs
1.1
0
 
1.0beta
0
 
1.0
0
RemainingDegreeDistribution
1.0
844
ReOrientPlugin
1.0
1766
 
0.3
957
RINalyzer
1.3
0
RubyScriptingEngine
1.7
150
 
1.0
398
 
0.21
708
ScriptEngineManager
1.0
1117
 
0.08
1722
SessionForWeb
3.2
1054
 
3.1
1365
 
3.0
1078
SFLDLoader
1.3
1490
 
1.2
1232
 
1.0
1384
ShortestPath Plugin
1.1
5754
SimBoolNet
1.0
340
SimTrek
1.0
659
SLiMScape
1.6
557
 
1.5
141
 
1.2
129
 
1.0
124
SPNConverter
1.0
302
STOP
1.0
536
StringWSClient
1.2
4423
 
1.1
1508
 
1.0
1031
structureViz
1.9
1678
 
1.3
2101
 
1.2
1360
 
1.0
1720
SubnetworkCreator
1.2
719
 
1.1
456
 
1.0
1165
Superpathways-Plugin
1.2
1388
 
1.0
1067
TransClust
1.01
1505
 
1.0
1652
VennDiagramGenerator
1.4
2599
 
1.02
1573
 
1.0
1261
VennDiagrams
0.5
938
 
0.3
1224
Viacomplex for Cytoscape
1.0
0
VistaClaraPlugin
1.05
3323
 
1.02
1835
 
1.01
2302
 
1.0
1448
 
0.20
180
WordCloud
1.0
1744
 
1.0
0