Since the release of Cytoscape 2.5 (July 2007), there are 117007 users (distinct IP addresses) downloaded plugins from this site. Total download count is 944437.

 

Plugin Name
version
Total download

Total downlaod

last 30 days

3DScape
0.4
0
 
0.2
0
3DScapeCS
0.6
2365
addParentNeighbors
1.0
1946
AdvancedNetworkMerge
1.12
2429
 
1.10
2099
 
1.05
714
 
1.04
445
AgilentLiteratureSearch
2.78
6141
 
2.77
76466
 
2.76
7565
 
2.71
11744
 
2.70
34303
 
2.69
4174
 
2.68
5797
 
2.55
14824
 
2.54
385
AllegroLayout
1.1
950
 
1.0
291
AllegroMCODE
2.1
1930
 
2.0
445
 
1.0
4443
AlternativeTableImport
1.3
786
 
1.2
486
 
1.1
439
 
1.0
496
APCluster
2.1
2250
APID2NET
1.52
6449
 
1.51
1917
 
1.5
2264
ARMember – Membership & User profile Plugin
1.0
0
batchTool
1.0
1753
 
0.5
1318
BiNAT
1.0
0
BiNGO
2.44
23932
 
2.42
3741
 
2.31
6384
 
2.3
16342
 
2.1
9373
 
2.0
1053
BiNoM
2.5
1076
 
2.4
31
 
2.3
104
 
2.2
264
 
2.1
281
 
2.0
307
 
1.0
2965
bioCycPlugin
0.9
2921
BiogridPlugin
0.2
1141
 
0.1
4215
BiomartClient
0.90
2972
 
0.80
6697
BioNetBuilder
2.0
5922
BioQualiPlugin
2.0
1441
 
1.1
2132
 
1.0
1369
BisoGenet
1.41
3136
 
1.40
1246
BLAST2SimilarityGraph
1.01
3311
 
1.0
2381
BNMatch
1.1
765
 
1.0
560
BubbleRouter
1.1
3570
 
1.0
2927
CABIN
2.1
3427
CalculateNodeDegree
1.0
1668
CARLSBAD
1.1
402
 
1.0
74
CellFateScout
0.95
323
CentiScaPe
1.21
2830
 
1.2
2233
 
1.1
1664
 
1.0
3704
ChartPlugin
1.1
866
 
1.0
574
ChemViz
1.3
365
 
1.1
2071
ClojureEngine
1.0
491
ClueGO
1.8
1918
 
1.71
634
 
1.7
199
 
1.6
104
 
1.5
313
 
1.4
2787
 
1.31
1331
 
1.3
1596
 
1.2
1893
 
1.1
1598
CluePedia
1.3
723
 
1.21
299
 
1.2
67
 
1.1
54
 
1.0
154
clusterExplorerPlugin
1.01
1988
 
1.0
1913
 
0.9
2016
clusterMaker
1.9
3863
 
1.8
1268
 
1.6
3275
 
1.5
947
 
1.11
1787
 
1.10
5591
 
1.1
2017
 
1.0
2653
ClusterONE
0.93
2671
 
0.92
902
 
0.91
1428
 
0.9
1111
 
0.1
1183
ClusterViz
1.2
3219
 
1.1
1489
 
1.0
1619
ClustnSee
1.0
1633
COMA
1.101
2210
 
1.1
1316
 
1.0
1354
commandTool
0.91
2045
 
0.9
1219
CommFinder
1.1
1939
CommonAttributes
2.0
2119
 
1.3
1470
ConReg
0.1
451
ConsensusPathDBplugin
1.0
2060
ContigScape
1.0
582
coreCommands
0.9
1412
CoryneRegNetLoader
1.101
1864
 
1.1
1418
 
1.0
1176
CyAnimator
0.9
2855
CyClus3D
3.3
1405
 
3.1
848
CyGoose
2.9
1148
 
2.8
894
 
2.7
1398
 
2.6
1510
 
2.5
1383
 
2.10
949
CyKEGGParser
1.3
987
 
1.1
686
 
1.0
631
Cyrface
1.0
1259
 
0.2
628
CySBGN
1.2
1059
 
1.1
217
 
1.0
557
CySBML
1.2
1909
cySBML
0.5
0
CyTableReaderPlugin
0.1
604
CyTargetLinker
2.1
1198
 
2.0
993
 
1.0
1113
CyThesaurus-ID-Mapping
1.31
3270
 
1.30
640
 
1.20
866
 
1.11
1041
 
1.10
512
 
1.04
849
 
1.03
772
 
1.02
12
 
1.01
58
 
1.0
12
CytoCopteR
1.2
772
 
1.1
438
 
1.0
529
CytoHiCPlugin
1.1
625
 
1.0
594
cytoHubba
1.6
3512
 
1.5
971
 
1.4
876
 
1.3
527
 
1.2
861
 
1.1
1929
 
1.0
1500
CytoITMprobe
1.5
663
 
1.4
461
CytoKavosh
1.1
1746
 
1.0
592
Cytomcl
1.1
1796
 
1.1
1427
 
1.0
1162
 
1.0
0
Cytoprophet
1.0
3512
CytoSaddleSum
1.5
926
 
1.4
567
CytoscapeRPC
1.8
5059
 
1.7
859
 
1.6
887
 
1.5
585
 
1.4
610
 
1.3
771
 
1.2
805
 
1.1
574
 
1.0
999
CytoSEED
1.1
622
 
1.0
216
CytoSeVis
1.0
766
CytoSQL
1.0
1581
 
0.9
966
DisGeNET
1.02
0
DisplayNetworkFromFlatFile
1.0
1329
DomainGraph
3.01
1911
 
2.01
1847
 
2.0
890
Dr. Shashikumar N.g
cytoscape 3.4.0
0
Dr.Shashikumar N.G.
2.x
0
DroID
1.0
2453
DualLayout
0.01
1364
DvD
1.0
285
dynamicXpr
1.3
3260
 
1.2
2071
edgeLengthPlugin
1.1
1972
 
1.0
1448
edgeLister
1.2
1211
 
1.1
1652
EnhancedSearch
1.2
3606
 
1.1
3694
 
1.0
1727
EnrichmentMap
1.3
1311
 
1.2
4871
 
1.1
1150
 
1.0
1019
ENViz
1.1
1253
 
1.0
843
ExprEssence
1.20
1669
ExpressionCorrelation
1.01
5041
 
1.0
1623
FluxViz
0.12
1071
 
0.09
895
FM3
1.1
2113
FNodeAtt
0.9
500
FreemakeSliderPlugin
1.0
0
FunNetViz
1.0
1294
GALANT
1.0
0
GASOLINE
1.0
708
GeneMANIA
3.2
3126
 
3.1
844
 
3.0
702
 
2.5
1624
 
2.4
1267
 
2.3
1012
 
2.2
1434
 
2.1
900
 
2.0
845
 
1.0
832
GenomeSpaceLibsPlugin
0.1
204
GenomeSpacePlugin
0.1
758
Genoscape
1.2
2805
 
1.11
1272
 
1.1
1097
GESTODifferent
1.0
0
GFD-Net
1.0
691
GIANT
1.0
0
GoldenTabs
21
0
GoogleChartFunctions
1.1
2675
GPEC
1.1
1402
GPML-Plugin
1.4
2157
 
1.3
1642
 
1.2
1547
 
1.1
1171
 
1.0
884
 
0.9
858
 
0.8
1190
 
0.7
824
 
0.6
872
 
0.5
746
 
0.4
908
 
0.3
1428
 
0.2
1269
 
0.1
1352
GraMoFoNe
0.12
682
GraphletCounter
1.2
1621
 
1.0
994
GraphMLReader
0.11
4035
GroovyEngine
1.0
678
GroovyScriptingEngine
0.11
1393
GroupTool
1.3
1624
 
1.2
1914
 
1.1
1433
 
1.0
1717
HiderSlider
1.0
2441
HOMECAT
1.2
443
 
1.1
157
 
1.0
249
HyperEdgeEditor
2.68
1399
 
2.66
1362
 
2.65
912
 
2.62
1892
 
2.61
1645
 
2.60
1312
 
2.56
596
 
2.53
396
iCTNet
0.1
1186
IDSwitcher
1.0
930
IgraphPlugin
0.1
1210
IntActWSClient
0.66
2515
Interference
1.0
1531
iRefScape
1.18
1964
 
1.17
336
 
1.16
474
 
0.90
843
 
0.89
525
 
0.88
359
 
0.87
370
 
0.86
477
 
0.82
539
iRegulon
1.3
130
 
1.2
85
 
1.1
286
 
1.0
42
jActiveModules
2.23
9105
 
2.22
1614
 
2.21
1617
 
2.2
5669
JavaScriptEngine
1.0
1127
 
0.11
1264
KeyPathwayMiner
4.0
625
 
3.0
1983
 
2.1
816
 
2.0
468
 
1.0
741
KGMLReader
0.151
2737
 
0.15
2108
 
0.11
632
 
0.10
1422
 
0.06
1711
KNIMEConnector
1.1
1186
 
1.0
889
LayoutSaverPlugin
1.0
1362
Mark
2
0
mcl-new
1.1
737
MCODE
1.32
10034
 
1.31
6489
 
1.3
6978
 
1.2
3103
MetaNetter
2.1
2789
MetaNodePlugin2
1.6
1995
 
1.5
1437
 
1.2
1888
 
1.1
1415
 
1.01
1507
 
1.0
1419
MetScape
2.33
2458
 
2.32
2074
 
2.31
1695
 
2.3
1037
 
2.21
186
 
2.2
21
 
2.11
375
 
2.0
256
 
1.01
1990
 
1.0
1318
 
0.8
1817
MiMIplugin
3.11
6249
 
3.1
1214
 
3.01
4260
 
3.0
1729
 
2.2
1917
 
2.1
1700
 
2.0
1694
MINE
1.5
2093
 
1.0
1043
MiSink
2.04
2014
 
2.03
1400
 
2.00
1631
ModuLand
1.5
0
 
1.4
0
MONET
2.1
1582
 
2.01
895
 
1.1
2067
Mosaic
1.1
1480
 
1.0
1442
MostHighlyConnectedSubgraphPlugin
1.0
696
MultiColoredNodes
2.540
1962
 
2.533
279
 
2.500
952
 
2.432
504
MultilevelLayoutPlugin
0.6
2085
 
0.41
1964
 
0.4
307
NamedSelection
1.5
1393
 
1.2
1950
 
1.1
1463
 
1.0
2473
NatureProtocolsWorkflow
1.0
3365
NCBIClient
0.92
3061
 
0.70
7691
NCBIEntrezGeneUserInterface
0.52
11431
NDBReaderPlugin
0.1
781
NeighborHighlight
1.0
4856
NeMo
1.4
3755
 
1.3
1352
NetAtlas
1.2
1137
 
1.1
1548
NetCirChro
1.0
895
NetDS
3.0
1367
NetLink
0.1
2360
netMatch
2.2
2137
 
2.1
2542
NetTwo
0.1
699
NetworkEvolution
2.1
1222
NetworkPrioritizer
1.01
0
NOA
1.1
1762
 
1.0
542
nodeCharts
0.94
3176
 
0.92
883
 
0.91
845
 
0.91
18
OrthoNets
1.0
1401
OWLPlugin
1.0
1324
PanGIA
1.1
1764
 
1.0
785
Pathintegrator
1.0
1781
PerturbationAnalyzer
1.2
1624
 
1.1
523
 
1.0
816
 
0.2
682
 
0.1
749
PhosphositePlus Web Service Client Module
1.0
0
PhyloTree
0.1
2039
PICRClient
0.2
1990
PINA4MS
1.1
429
 
1.0
427
PiNGO
1.11
3964
 
1.10
1050
 
1.00
1525
PinnacleZ
1.1
2097
 
1.0
1396
PSICQUICUniversalClient
0.31
2187
 
0.25
3952
PushMonkey
2.2
0
PythonScriptingEngine
2.53
611
 
0.21
1998
RandomNetworks
1.0
5638
Reactome FIs
1.1
0
 
1.0beta
0
 
1.0
0
RemainingDegreeDistribution
1.0
1067
ReOrientPlugin
1.0
2087
 
0.3
1114
RINalyzer
1.3
0
RubyScriptingEngine
1.7
273
 
1.0
628
 
0.21
1095
ScriptEngineManager
1.0
1262
 
0.08
1900
SessionForWeb
3.2
1266
 
3.1
1563
 
3.0
1227
SFLDLoader
1.3
1684
 
1.2
1450
 
1.0
1560
Shashikumar
3.4.0
0
ShortestPath Plugin
1.1
6360
SimBoolNet
1.0
416
SimTrek
1.0
991
SLiMScape
1.6
811
 
1.5
222
 
1.2
206
 
1.0
291
SPNConverter
1.0
489
STOP
1.0
778
StringWSClient
1.2
4822
 
1.1
1689
 
1.0
1213
structureViz
1.9
1934
 
1.3
2274
 
1.2
1508
 
1.0
1914
SubnetworkCreator
1.2
1031
 
1.1
607
 
1.0
1355
Sudy
2.9.3
0
Superpathways-Plugin
1.2
1924
 
1.0
1661
TransClust
1.01
1839
 
1.0
2055
VennDiagramGenerator
1.4
2964
 
1.02
1793
 
1.0
1507
VennDiagrams
0.5
1129
 
0.3
1405
Viacomplex for Cytoscape
1.0
0
VistaClaraPlugin
1.05
3952
 
1.02
2093
 
1.01
2490
 
1.0
1703
 
0.20
180
WordCloud
1.0
2137
 
1.0
0