Since the release of Cytoscape 2.5 (July 2007), there are 106065 users (distinct IP addresses) downloaded plugins from this site. Total download count is 783601.

 

Plugin Name
version
Total download

Total downlaod

last 30 days

3DScape
0.4
0
 
0.2
0
3DScapeCS
0.6
1945
addParentNeighbors
1.0
1861
AdvancedNetworkMerge
1.12
2243
 
1.10
1905
 
1.05
714
 
1.04
445
AgilentLiteratureSearch
2.78
4534
 
2.77
18124
 
2.76
6113
 
2.71
6464
 
2.70
8193
 
2.69
1534
 
2.68
3102
 
2.55
8821
 
2.54
382
AllegroLayout
1.1
801
 
1.0
175
AllegroMCODE
2.1
1903
 
2.0
432
 
1.0
4239
AlternativeTableImport
1.3
580
 
1.2
303
 
1.1
282
 
1.0
312
APCluster
2.1
2047
APID2NET
1.52
6267
 
1.51
1808
 
1.5
2149
batchTool
1.0
1642
 
0.5
1239
BiNAT
1.0
0
BiNGO
2.44
23790
 
2.42
3732
 
2.31
6363
 
2.3
16326
 
2.1
9357
 
2.0
1052
BiNoM
2.5
988
 
2.4
31
 
2.3
104
 
2.2
264
 
2.1
280
 
2.0
307
 
1.0
2793
bioCycPlugin
0.9
2704
BiogridPlugin
0.2
1058
 
0.1
4004
BiomartClient
0.90
2842
 
0.80
6584
BioNetBuilder
2.0
5751
BioQualiPlugin
2.0
1277
 
1.1
1953
 
1.0
1276
BisoGenet
1.41
3092
 
1.40
1214
BLAST2SimilarityGraph
1.01
2947
 
1.0
2207
BNMatch
1.1
682
 
1.0
456
BubbleRouter
1.1
3420
 
1.0
2673
CABIN
2.1
3219
CalculateNodeDegree
1.0
1582
CARLSBAD
1.1
396
 
1.0
71
CellFateScout
0.95
150
CentiScaPe
1.21
2635
 
1.2
2121
 
1.1
1597
 
1.0
3640
ChartPlugin
1.1
753
 
1.0
393
ChemViz
1.3
360
 
1.1
2031
ClojureEngine
1.0
376
ClueGO
1.8
1817
 
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
700
 
1.21
296
 
1.2
65
 
1.1
52
 
1.0
152
clusterExplorerPlugin
1.01
1846
 
1.0
1734
 
0.9
1845
clusterMaker
1.9
3696
 
1.8
1126
 
1.6
3086
 
1.5
852
 
1.11
1674
 
1.10
5303
 
1.1
1884
 
1.0
2510
ClusterONE
0.93
2497
 
0.92
705
 
0.91
1265
 
0.9
967
 
0.1
990
ClusterViz
1.2
3193
 
1.1
1351
 
1.0
1434
ClustnSee
1.0
1346
COMA
1.101
2116
 
1.1
1224
 
1.0
1274
commandTool
0.91
1937
 
0.9
1087
CommFinder
1.1
1606
CommonAttributes
2.0
2013
 
1.3
1390
ConReg
0.1
386
ConsensusPathDBplugin
1.0
1908
ContigScape
1.0
435
coreCommands
0.9
1289
CoryneRegNetLoader
1.101
1708
 
1.1
1311
 
1.0
1100
CyAnimator
0.9
2740
CyClus3D
3.3
1265
 
3.1
711
CyGoose
2.9
1045
 
2.8
805
 
2.7
1277
 
2.6
1351
 
2.5
1221
 
2.10
847
CyKEGGParser
1.3
924
 
1.1
641
 
1.0
591
Cyrface
1.0
931
 
0.2
523
CySBGN
1.2
810
 
1.1
179
 
1.0
377
CySBML
1.2
1813
cySBML
0.5
0
CyTableReaderPlugin
0.1
487
CyTargetLinker
2.1
922
 
2.0
781
 
1.0
939
CyThesaurus-ID-Mapping
1.31
2920
 
1.30
226
 
1.20
808
 
1.11
914
 
1.10
472
 
1.04
755
 
1.03
555
 
1.02
12
 
1.01
58
 
1.0
12
CytoCopteR
1.2
692
 
1.1
401
 
1.0
406
CytoHiCPlugin
1.1
459
 
1.0
496
cytoHubba
1.6
3252
 
1.5
857
 
1.4
767
 
1.3
422
 
1.2
678
 
1.1
1769
 
1.0
1389
CytoITMprobe
1.5
559
 
1.4
360
CytoKavosh
1.1
1534
 
1.0
474
Cytomcl
1.1
1334
 
1.1
1649
 
1.0
0
 
1.0
1028
Cytoprophet
1.0
3367
CytoSaddleSum
1.5
860
 
1.4
443
CytoscapeRPC
1.8
4586
 
1.7
777
 
1.6
806
 
1.5
495
 
1.4
512
 
1.3
696
 
1.2
731
 
1.1
500
 
1.0
799
CytoSEED
1.1
556
 
1.0
154
CytoSeVis
1.0
666
CytoSQL
1.0
1393
 
0.9
841
DisGeNET
1.02
0
DisplayNetworkFromFlatFile
1.0
1229
DomainGraph
3.01
1741
 
2.01
1778
 
2.0
769
Dr. Shashikumar N.g
cytoscape 3.4.0
0
Dr.Shashikumar N.G.
2.x
0
DroID
1.0
2203
DualLayout
0.01
1261
DvD
1.0
266
dynamicXpr
1.3
3130
 
1.2
1973
edgeLengthPlugin
1.1
1856
 
1.0
1379
edgeLister
1.2
1211
 
1.1
1570
EnhancedSearch
1.2
3425
 
1.1
3532
 
1.0
1562
EnrichmentMap
1.3
1057
 
1.2
4757
 
1.1
1062
 
1.0
879
ENViz
1.1
1069
 
1.0
725
ExprEssence
1.20
1463
ExpressionCorrelation
1.01
4781
 
1.0
1472
FluxViz
0.12
931
 
0.09
647
FM3
1.1
1889
FNodeAtt
0.9
414
FreemakeSliderPlugin
1.0
0
FunNetViz
1.0
1267
GALANT
1.0
0
GASOLINE
1.0
522
GeneMANIA
3.2
3073
 
3.1
811
 
3.0
580
 
2.5
1571
 
2.4
1141
 
2.3
836
 
2.2
1317
 
2.1
896
 
2.0
839
 
1.0
827
GenomeSpaceLibsPlugin
0.1
203
GenomeSpacePlugin
0.1
602
Genoscape
1.2
2607
 
1.11
1186
 
1.1
1001
GESTODifferent
1.0
0
GFD-Net
1.0
489
GIANT
1.0
0
GoogleChartFunctions
1.1
2489
GPEC
1.1
1343
GPML-Plugin
1.4
1688
 
1.3
1597
 
1.2
1267
 
1.1
974
 
1.0
719
 
0.9
775
 
0.8
1056
 
0.7
696
 
0.6
720
 
0.5
610
 
0.4
772
 
0.3
1249
 
0.2
1092
 
0.1
1118
GraMoFoNe
0.12
578
GraphletCounter
1.2
1473
 
1.0
860
GraphMLReader
0.11
3571
GroovyEngine
1.0
661
GroovyScriptingEngine
0.11
1207
GroupTool
1.3
1465
 
1.2
1798
 
1.1
1346
 
1.0
1627
HiderSlider
1.0
2354
HOMECAT
1.2
398
 
1.1
129
 
1.0
209
HyperEdgeEditor
2.68
1224
 
2.66
1250
 
2.65
813
 
2.62
1769
 
2.61
1547
 
2.60
1212
 
2.56
593
 
2.53
395
iCTNet
0.1
967
IDSwitcher
1.0
823
IgraphPlugin
0.1
991
IntActWSClient
0.66
2359
Interference
1.0
1348
iRefScape
1.18
1761
 
1.17
257
 
1.16
320
 
0.90
733
 
0.89
440
 
0.88
262
 
0.87
275
 
0.86
299
 
0.82
372
iRegulon
1.3
101
 
1.2
83
 
1.1
283
 
1.0
40
jActiveModules
2.23
8872
 
2.22
1526
 
2.21
1524
 
2.2
5524
JavaScriptEngine
1.0
1028
 
0.11
1113
KeyPathwayMiner
4.0
453
 
3.0
1829
 
2.1
617
 
2.0
390
 
1.0
546
KGMLReader
0.151
2484
 
0.15
1938
 
0.11
490
 
0.10
1270
 
0.06
1549
KNIMEConnector
1.1
1002
 
1.0
767
LayoutSaverPlugin
1.0
1258
Mark
2
0
mcl-new
1.1
569
MCODE
1.32
9745
 
1.31
6357
 
1.3
6759
 
1.2
2934
MetaNetter
2.1
2598
MetaNodePlugin2
1.6
1853
 
1.5
1346
 
1.2
1783
 
1.1
1326
 
1.01
1433
 
1.0
1352
MetScape
2.33
2371
 
2.32
1774
 
2.31
1646
 
2.3
948
 
2.21
186
 
2.2
20
 
2.11
374
 
2.0
255
 
1.01
1804
 
1.0
1147
 
0.8
1638
MiMIplugin
3.11
5972
 
3.1
1100
 
3.01
4111
 
3.0
1640
 
2.2
1811
 
2.1
1600
 
2.0
1596
MINE
1.5
1915
 
1.0
926
MiSink
2.04
1825
 
2.03
1244
 
2.00
1471
ModuLand
1.5
0
 
1.4
0
MONET
2.1
1379
 
2.01
895
 
1.1
1926
Mosaic
1.1
1270
 
1.0
1396
MostHighlyConnectedSubgraphPlugin
1.0
568
MultiColoredNodes
2.540
1667
 
2.533
200
 
2.500
806
 
2.432
345
MultilevelLayoutPlugin
0.6
1969
 
0.41
1878
 
0.4
307
NamedSelection
1.5
1300
 
1.2
1852
 
1.1
1373
 
1.0
2327
NatureProtocolsWorkflow
1.0
3276
NCBIClient
0.92
2850
 
0.70
7564
NCBIEntrezGeneUserInterface
0.52
11315
NDBReaderPlugin
0.1
633
NeighborHighlight
1.0
4569
NeMo
1.4
3600
 
1.3
1240
NetAtlas
1.2
973
 
1.1
1437
NetCirChro
1.0
854
NetDS
3.0
1146
NetLink
0.1
2273
netMatch
2.2
1937
 
2.1
2374
NetTwo
0.1
553
NetworkEvolution
2.1
1088
NetworkPrioritizer
1.01
0
NOA
1.1
1411
 
1.0
438
nodeCharts
0.94
2952
 
0.92
755
 
0.91
757
 
0.91
18
OrthoNets
1.0
1237
OWLPlugin
1.0
1222
PanGIA
1.1
1547
 
1.0
684
Pathintegrator
1.0
1730
PerturbationAnalyzer
1.2
1448
 
1.1
456
 
1.0
692
 
0.2
539
 
0.1
685
PhosphositePlus Web Service Client Module
1.0
0
PhyloTree
0.1
1773
PICRClient
0.2
1889
PINA4MS
1.1
219
 
1.0
266
PiNGO
1.11
3704
 
1.10
887
 
1.00
1354
PinnacleZ
1.1
1971
 
1.0
1310
PSICQUICUniversalClient
0.31
2102
 
0.25
3766
PythonScriptingEngine
2.53
604
 
0.21
1983
RandomNetworks
1.0
5354
Reactome FIs
1.1
0
 
1.0beta
0
 
1.0
0
RemainingDegreeDistribution
1.0
968
ReOrientPlugin
1.0
1932
 
0.3
1042
RINalyzer
1.3
0
RubyScriptingEngine
1.7
266
 
1.0
616
 
0.21
1082
ScriptEngineManager
1.0
1183
 
0.08
1795
SessionForWeb
3.2
1157
 
3.1
1469
 
3.0
1136
SFLDLoader
1.3
1558
 
1.2
1330
 
1.0
1452
ShortestPath Plugin
1.1
6039
SimBoolNet
1.0
385
SimTrek
1.0
736
SLiMScape
1.6
659
 
1.5
169
 
1.2
160
 
1.0
150
SPNConverter
1.0
363
STOP
1.0
676
StringWSClient
1.2
4618
 
1.1
1569
 
1.0
1126
structureViz
1.9
1810
 
1.3
2170
 
1.2
1421
 
1.0
1833
SubnetworkCreator
1.2
877
 
1.1
530
 
1.0
1251
Sudy
2.9.3
0
Superpathways-Plugin
1.2
1846
 
1.0
1496
TransClust
1.01
1604
 
1.0
1860
VennDiagramGenerator
1.4
2780
 
1.02
1678
 
1.0
1384
VennDiagrams
0.5
981
 
0.3
1268
Viacomplex for Cytoscape
1.0
0
VistaClaraPlugin
1.05
3645
 
1.02
1911
 
1.01
2359
 
1.0
1529
 
0.20
180
WordCloud
1.0
1878
 
1.0
0