Since the release of Cytoscape 2.5 (July 2007), there are 97817 users (distinct IP addresses) downloaded plugins from this site. Total download count is 727749.

 

Plugin Name
version
Total download

Total downlaod

last 30 days

3DScape
0.4
0
 
0.2
0
3DScapeCS
0.6
1668
addParentNeighbors
1.0
1809
AdvancedNetworkMerge
1.12
2140
 
1.10
1780
 
1.05
714
 
1.04
445
AgilentLiteratureSearch
2.78
3670
 
2.77
13343
 
2.76
3838
 
2.71
4471
 
2.70
5935
 
2.69
1463
 
2.68
1623
 
2.55
7883
 
2.54
382
AllegroLayout
1.1
753
 
1.0
158
AllegroMCODE
2.1
1554
 
2.0
208
 
1.0
4190
AlternativeTableImport
1.3
520
 
1.2
268
 
1.1
232
 
1.0
260
APCluster
2.1
1978
APID2NET
1.52
6115
 
1.51
1725
 
1.5
2086
batchTool
1.0
1574
 
0.5
1194
BiNAT
1.0
0
BiNGO
2.44
23541
 
2.42
3696
 
2.31
6142
 
2.3
16105
 
2.1
9080
 
2.0
1052
BiNoM
2.5
873
 
2.4
26
 
2.3
97
 
2.2
260
 
2.1
279
 
2.0
306
 
1.0
2754
bioCycPlugin
0.9
2578
BiogridPlugin
0.2
982
 
0.1
3819
BiomartClient
0.90
2770
 
0.80
6503
BioNetBuilder
2.0
5714
BioQualiPlugin
2.0
1244
 
1.1
1622
 
1.0
1253
BisoGenet
1.41
2754
 
1.40
888
BLAST2SimilarityGraph
1.01
2733
 
1.0
2101
BNMatch
1.1
618
 
1.0
373
BubbleRouter
1.1
3355
 
1.0
2584
CABIN
2.1
2848
CalculateNodeDegree
1.0
1480
CARLSBAD
1.1
390
 
1.0
70
CellFateScout
0.95
119
CentiScaPe
1.21
2568
 
1.2
2090
 
1.1
1564
 
1.0
3616
ChartPlugin
1.1
710
 
1.0
354
ChemViz
1.3
335
 
1.1
2000
ClojureEngine
1.0
346
ClueGO
1.8
1718
 
1.71
629
 
1.7
195
 
1.6
103
 
1.5
313
 
1.4
2755
 
1.31
1322
 
1.3
1589
 
1.2
1888
 
1.1
1582
CluePedia
1.3
674
 
1.21
295
 
1.2
61
 
1.1
46
 
1.0
147
clusterExplorerPlugin
1.01
1783
 
1.0
1704
 
0.9
1779
clusterMaker
1.9
3663
 
1.8
735
 
1.6
2996
 
1.5
804
 
1.11
1633
 
1.10
5110
 
1.1
1834
 
1.0
2415
ClusterONE
0.93
2448
 
0.92
640
 
0.91
1212
 
0.9
873
 
0.1
896
ClusterViz
1.2
2969
 
1.1
1272
 
1.0
1353
ClustnSee
1.0
1211
COMA
1.101
2030
 
1.1
1171
 
1.0
1198
commandTool
0.91
1868
 
0.9
1037
CommFinder
1.1
1425
CommonAttributes
2.0
1951
 
1.3
1328
ConReg
0.1
365
ConsensusPathDBplugin
1.0
1753
ContigScape
1.0
386
coreCommands
0.9
1208
CoryneRegNetLoader
1.101
1602
 
1.1
1216
 
1.0
1053
CyAnimator
0.9
2660
CyClus3D
3.3
1194
 
3.1
631
CyGoose
2.9
958
 
2.8
768
 
2.7
1197
 
2.6
1313
 
2.5
1185
 
2.10
790
CyKEGGParser
1.3
589
 
1.1
310
 
1.0
258
Cyrface
1.0
521
 
0.2
431
CySBGN
1.2
686
 
1.1
159
 
1.0
347
CySBML
1.2
1393
cySBML
0.5
0
CyTableReaderPlugin
0.1
448
CyTargetLinker
2.1
807
 
2.0
699
 
1.0
859
CyThesaurus-ID-Mapping
1.31
2746
 
1.30
188
 
1.20
783
 
1.11
890
 
1.10
450
 
1.04
692
 
1.03
523
 
1.02
12
 
1.01
58
 
1.0
12
CytoCopteR
1.2
342
 
1.1
368
 
1.0
376
CytoHiCPlugin
1.1
367
 
1.0
435
cytoHubba
1.6
3048
 
1.5
796
 
1.4
727
 
1.3
383
 
1.2
612
 
1.1
1725
 
1.0
1307
CytoITMprobe
1.5
526
 
1.4
307
CytoKavosh
1.1
1416
 
1.0
426
Cytomcl
1.1
1627
 
1.1
1284
 
1.0
0
 
1.0
945
Cytoprophet
1.0
3259
CytoSaddleSum
1.5
825
 
1.4
409
CytoscapeRPC
1.8
4061
 
1.7
717
 
1.6
737
 
1.5
443
 
1.4
440
 
1.3
634
 
1.2
671
 
1.1
457
 
1.0
700
CytoSEED
1.1
519
 
1.0
129
CytoSeVis
1.0
575
CytoSQL
1.0
1329
 
0.9
813
DisGeNET
1.02
0
DisplayNetworkFromFlatFile
1.0
1144
DomainGraph
3.01
1669
 
2.01
1755
 
2.0
747
DroID
1.0
2073
DualLayout
0.01
1181
DvD
1.0
241
dynamicXpr
1.3
3010
 
1.2
1878
edgeLengthPlugin
1.1
1780
 
1.0
1341
edgeLister
1.2
1209
 
1.1
1514
EnhancedSearch
1.2
3342
 
1.1
3445
 
1.0
1537
EnrichmentMap
1.3
923
 
1.2
4708
 
1.1
1015
 
1.0
806
ENViz
1.1
637
 
1.0
390
ExprEssence
1.20
1416
ExpressionCorrelation
1.01
4669
 
1.0
1398
FluxViz
0.12
913
 
0.09
588
FM3
1.1
1708
FNodeAtt
0.9
325
FunNetViz
1.0
1222
GALANT
1.0
0
GASOLINE
1.0
393
GeneMANIA
3.2
2762
 
3.1
499
 
3.0
284
 
2.5
1259
 
2.4
820
 
2.3
504
 
2.2
1000
 
2.1
871
 
2.0
817
 
1.0
802
GenomeSpaceLibsPlugin
0.1
189
GenomeSpacePlugin
0.1
512
Genoscape
1.2
2511
 
1.11
1132
 
1.1
938
GESTODifferent
1.0
0
GFD-Net
1.0
418
GIANT
1.0
0
GoogleChartFunctions
1.1
2374
GPEC
1.1
993
GPML-Plugin
1.4
1458
 
1.3
1568
 
1.2
1199
 
1.1
934
 
1.0
680
 
0.9
754
 
0.8
1034
 
0.7
669
 
0.6
693
 
0.5
578
 
0.4
752
 
0.3
1205
 
0.2
1047
 
0.1
1068
GraMoFoNe
0.12
560
GraphletCounter
1.2
1362
 
1.0
765
GraphMLReader
0.11
3210
GroovyEngine
1.0
393
GroovyScriptingEngine
0.11
879
GroupTool
1.3
1328
 
1.2
1726
 
1.1
1273
 
1.0
1554
HiderSlider
1.0
2285
HOMECAT
1.2
359
 
1.1
108
 
1.0
186
HyperEdgeEditor
2.68
1126
 
2.66
1164
 
2.65
766
 
2.62
1708
 
2.61
1457
 
2.60
1113
 
2.56
593
 
2.53
395
iCTNet
0.1
869
IDSwitcher
1.0
778
IgraphPlugin
0.1
931
IntActWSClient
0.66
2288
Interference
1.0
1004
iRefScape
1.18
1678
 
1.17
228
 
1.16
301
 
0.90
713
 
0.89
405
 
0.88
241
 
0.87
257
 
0.86
270
 
0.82
337
iRegulon
1.3
68
 
1.2
77
 
1.1
281
 
1.0
30
jActiveModules
2.23
8757
 
2.22
1478
 
2.21
1475
 
2.2
5468
JavaScriptEngine
1.0
957
 
0.11
1070
KeyPathwayMiner
4.0
393
 
3.0
1761
 
2.1
554
 
2.0
354
 
1.0
509
KGMLReader
0.151
2285
 
0.15
1868
 
0.11
416
 
0.10
1210
 
0.06
1501
KNIMEConnector
1.1
831
 
1.0
712
LayoutSaverPlugin
1.0
1144
Mark
2
0
mcl-new
1.1
537
MCODE
1.32
9530
 
1.31
6307
 
1.3
6614
 
1.2
2861
MetaNetter
2.1
2439
MetaNodePlugin2
1.6
1767
 
1.5
1305
 
1.2
1709
 
1.1
1283
 
1.01
1386
 
1.0
1265
MetScape
2.33
2010
 
2.32
1333
 
2.31
1312
 
2.3
586
 
2.21
186
 
2.2
17
 
2.11
373
 
2.0
252
 
1.01
1744
 
1.0
1094
 
0.8
1537
MiMIplugin
3.11
5770
 
3.1
1010
 
3.01
4013
 
3.0
1584
 
2.2
1759
 
2.1
1544
 
2.0
1504
MINE
1.5
1779
 
1.0
883
MiSink
2.04
1720
 
2.03
1163
 
2.00
1421
ModuLand
1.5
0
 
1.4
0
MONET
2.1
1315
 
2.01
895
 
1.1
1899
Mosaic
1.1
1126
 
1.0
1353
MostHighlyConnectedSubgraphPlugin
1.0
510
MultiColoredNodes
2.540
1479
 
2.533
177
 
2.500
773
 
2.432
319
MultilevelLayoutPlugin
0.6
1916
 
0.41
1794
 
0.4
307
NamedSelection
1.5
1251
 
1.2
1781
 
1.1
1326
 
1.0
2231
NatureProtocolsWorkflow
1.0
3188
NCBIClient
0.92
2758
 
0.70
7239
NCBIEntrezGeneUserInterface
0.52
11228
NDBReaderPlugin
0.1
562
NeighborHighlight
1.0
4386
NeMo
1.4
3473
 
1.3
1190
NetAtlas
1.2
907
 
1.1
1376
NetCirChro
1.0
613
NetDS
3.0
1074
NetLink
0.1
2232
netMatch
2.2
1873
 
2.1
2347
NetTwo
0.1
491
NetworkEvolution
2.1
1047
NetworkPrioritizer
1.01
0
NOA
1.1
1236
 
1.0
349
nodeCharts
0.94
2767
 
0.92
696
 
0.91
676
 
0.91
18
OrthoNets
1.0
1189
OWLPlugin
1.0
1120
PanGIA
1.1
1439
 
1.0
595
Pathintegrator
1.0
1677
PerturbationAnalyzer
1.2
1398
 
1.1
420
 
1.0
660
 
0.2
504
 
0.1
653
PhosphositePlus Web Service Client Module
1.0
0
PhyloTree
0.1
1665
PICRClient
0.2
1781
PINA4MS
1.1
170
 
1.0
205
PiNGO
1.11
3562
 
1.10
849
 
1.00
1286
PinnacleZ
1.1
1887
 
1.0
1270
PSICQUICUniversalClient
0.31
1764
 
0.25
3338
PythonScriptingEngine
2.53
569
 
0.21
1712
RandomNetworks
1.0
5158
Reactome FIs
1.1
0
 
1.0beta
0
 
1.0
0
RemainingDegreeDistribution
1.0
870
ReOrientPlugin
1.0
1802
 
0.3
980
RINalyzer
1.3
0
RubyScriptingEngine
1.7
245
 
1.0
505
 
0.21
815
ScriptEngineManager
1.0
1131
 
0.08
1738
SessionForWeb
3.2
1079
 
3.1
1394
 
3.0
1092
SFLDLoader
1.3
1505
 
1.2
1258
 
1.0
1401
ShortestPath Plugin
1.1
5822
SimBoolNet
1.0
353
SimTrek
1.0
677
SLiMScape
1.6
587
 
1.5
147
 
1.2
133
 
1.0
128
SPNConverter
1.0
316
STOP
1.0
569
StringWSClient
1.2
4460
 
1.1
1523
 
1.0
1054
structureViz
1.9
1711
 
1.3
2112
 
1.2
1374
 
1.0
1749
SubnetworkCreator
1.2
751
 
1.1
471
 
1.0
1185
Superpathways-Plugin
1.2
1494
 
1.0
1167
TransClust
1.01
1530
 
1.0
1705
VennDiagramGenerator
1.4
2634
 
1.02
1598
 
1.0
1292
VennDiagrams
0.5
943
 
0.3
1235
Viacomplex for Cytoscape
1.0
0
VistaClaraPlugin
1.05
3386
 
1.02
1847
 
1.01
2315
 
1.0
1465
 
0.20
180
WordCloud
1.0
0
 
1.0
1769