Since the release of Cytoscape 2.5 (July 2007), there are 112963 users (distinct IP addresses) downloaded plugins from this site. Total download count is 880377.

 

Plugin Name
version
Total download

Total downlaod

last 30 days

3DScape
0.4
0
 
0.2
0
3DScapeCS
0.6
2251
addParentNeighbors
1.0
1909
AdvancedNetworkMerge
1.12
2374
 
1.10
2025
 
1.05
714
 
1.04
445
AgilentLiteratureSearch
2.78
5646
 
2.77
53661
 
2.76
7087
 
2.71
9291
 
2.70
22809
 
2.69
2743
 
2.68
4606
 
2.55
10581
 
2.54
385
AllegroLayout
1.1
903
 
1.0
252
AllegroMCODE
2.1
1926
 
2.0
444
 
1.0
4381
AlternativeTableImport
1.3
720
 
1.2
413
 
1.1
395
 
1.0
416
APCluster
2.1
2176
APID2NET
1.52
6388
 
1.51
1877
 
1.5
2233
batchTool
1.0
1716
 
0.5
1289
BiNAT
1.0
0
BiNGO
2.44
23889
 
2.42
3740
 
2.31
6378
 
2.3
16340
 
2.1
9369
 
2.0
1053
BiNoM
2.5
1051
 
2.4
31
 
2.3
104
 
2.2
264
 
2.1
281
 
2.0
307
 
1.0
2908
bioCycPlugin
0.9
2848
BiogridPlugin
0.2
1104
 
0.1
4149
BiomartClient
0.90
2923
 
0.80
6657
BioNetBuilder
2.0
5870
BioQualiPlugin
2.0
1385
 
1.1
2076
 
1.0
1322
BisoGenet
1.41
3122
 
1.40
1235
BLAST2SimilarityGraph
1.01
3190
 
1.0
2329
BNMatch
1.1
736
 
1.0
522
BubbleRouter
1.1
3515
 
1.0
2837
CABIN
2.1
3348
CalculateNodeDegree
1.0
1641
CARLSBAD
1.1
398
 
1.0
73
CellFateScout
0.95
272
CentiScaPe
1.21
2776
 
1.2
2186
 
1.1
1644
 
1.0
3675
ChartPlugin
1.1
810
 
1.0
503
ChemViz
1.3
362
 
1.1
2062
ClojureEngine
1.0
454
ClueGO
1.8
1877
 
1.71
634
 
1.7
199
 
1.6
104
 
1.5
313
 
1.4
2783
 
1.31
1330
 
1.3
1595
 
1.2
1892
 
1.1
1596
CluePedia
1.3
714
 
1.21
298
 
1.2
66
 
1.1
53
 
1.0
153
clusterExplorerPlugin
1.01
1938
 
1.0
1836
 
0.9
1961
clusterMaker
1.9
3800
 
1.8
1227
 
1.6
3207
 
1.5
907
 
1.11
1742
 
1.10
5486
 
1.1
1951
 
1.0
2615
ClusterONE
0.93
2602
 
0.92
832
 
0.91
1368
 
0.9
1062
 
0.1
1116
ClusterViz
1.2
3210
 
1.1
1444
 
1.0
1558
ClustnSee
1.0
1533
COMA
1.101
2183
 
1.1
1279
 
1.0
1330
commandTool
0.91
2007
 
0.9
1172
CommFinder
1.1
1811
CommonAttributes
2.0
2084
 
1.3
1443
ConReg
0.1
419
ConsensusPathDBplugin
1.0
2014
ContigScape
1.0
537
coreCommands
0.9
1377
CoryneRegNetLoader
1.101
1778
 
1.1
1380
 
1.0
1149
CyAnimator
0.9
2814
CyClus3D
3.3
1370
 
3.1
790
CyGoose
2.9
1114
 
2.8
862
 
2.7
1355
 
2.6
1443
 
2.5
1324
 
2.10
913
CyKEGGParser
1.3
971
 
1.1
677
 
1.0
620
Cyrface
1.0
1176
 
0.2
595
CySBGN
1.2
981
 
1.1
201
 
1.0
503
CySBML
1.2
1881
cySBML
0.5
0
CyTableReaderPlugin
0.1
571
CyTargetLinker
2.1
1115
 
2.0
919
 
1.0
1045
CyThesaurus-ID-Mapping
1.31
3212
 
1.30
451
 
1.20
857
 
1.11
987
 
1.10
499
 
1.04
810
 
1.03
679
 
1.02
12
 
1.01
58
 
1.0
12
CytoCopteR
1.2
754
 
1.1
425
 
1.0
489
CytoHiCPlugin
1.1
582
 
1.0
559
cytoHubba
1.6
3419
 
1.5
930
 
1.4
838
 
1.3
490
 
1.2
792
 
1.1
1874
 
1.0
1468
CytoITMprobe
1.5
625
 
1.4
428
CytoKavosh
1.1
1674
 
1.0
560
Cytomcl
1.1
1732
 
1.1
1393
 
1.0
1119
 
1.0
0
Cytoprophet
1.0
3475
CytoSaddleSum
1.5
899
 
1.4
505
CytoscapeRPC
1.8
4930
 
1.7
822
 
1.6
857
 
1.5
554
 
1.4
574
 
1.3
745
 
1.2
774
 
1.1
544
 
1.0
933
CytoSEED
1.1
605
 
1.0
179
CytoSeVis
1.0
723
CytoSQL
1.0
1531
 
0.9
926
DisGeNET
1.02
0
DisplayNetworkFromFlatFile
1.0
1285
DomainGraph
3.01
1862
 
2.01
1827
 
2.0
840
Dr. Shashikumar N.g
cytoscape 3.4.0
0
Dr.Shashikumar N.G.
2.x
0
DroID
1.0
2369
DualLayout
0.01
1333
DvD
1.0
279
dynamicXpr
1.3
3223
 
1.2
2040
edgeLengthPlugin
1.1
1935
 
1.0
1423
edgeLister
1.2
1211
 
1.1
1648
EnhancedSearch
1.2
3541
 
1.1
3638
 
1.0
1661
EnrichmentMap
1.3
1201
 
1.2
4841
 
1.1
1123
 
1.0
979
ENViz
1.1
1188
 
1.0
801
ExprEssence
1.20
1591
ExpressionCorrelation
1.01
4938
 
1.0
1583
FluxViz
0.12
1020
 
0.09
821
FM3
1.1
2041
FNodeAtt
0.9
472
FreemakeSliderPlugin
1.0
0
FunNetViz
1.0
1284
GALANT
1.0
0
GASOLINE
1.0
648
GeneMANIA
3.2
3116
 
3.1
833
 
3.0
657
 
2.5
1614
 
2.4
1231
 
2.3
968
 
2.2
1399
 
2.1
899
 
2.0
842
 
1.0
829
GenomeSpaceLibsPlugin
0.1
203
GenomeSpacePlugin
0.1
712
Genoscape
1.2
2741
 
1.11
1245
 
1.1
1069
GESTODifferent
1.0
0
GFD-Net
1.0
613
GIANT
1.0
0
GoldenTabs
21
0
GoogleChartFunctions
1.1
2617
GPEC
1.1
1384
GPML-Plugin
1.4
2031
 
1.3
1636
 
1.2
1457
 
1.1
1118
 
1.0
827
 
0.9
828
 
0.8
1151
 
0.7
779
 
0.6
821
 
0.5
710
 
0.4
866
 
0.3
1365
 
0.2
1207
 
0.1
1271
GraMoFoNe
0.12
642
GraphletCounter
1.2
1584
 
1.0
953
GraphMLReader
0.11
3884
GroovyEngine
1.0
675
GroovyScriptingEngine
0.11
1343
GroupTool
1.3
1570
 
1.2
1877
 
1.1
1407
 
1.0
1685
HiderSlider
1.0
2410
HOMECAT
1.2
423
 
1.1
145
 
1.0
234
HyperEdgeEditor
2.68
1340
 
2.66
1332
 
2.65
881
 
2.62
1859
 
2.61
1614
 
2.60
1277
 
2.56
596
 
2.53
396
iCTNet
0.1
1111
IDSwitcher
1.0
884
IgraphPlugin
0.1
1134
IntActWSClient
0.66
2468
Interference
1.0
1468
iRefScape
1.18
1899
 
1.17
298
 
1.16
413
 
0.90
782
 
0.89
483
 
0.88
331
 
0.87
337
 
0.86
418
 
0.82
453
iRegulon
1.3
116
 
1.2
84
 
1.1
284
 
1.0
41
jActiveModules
2.23
9032
 
2.22
1583
 
2.21
1582
 
2.2
5621
JavaScriptEngine
1.0
1091
 
0.11
1207
KeyPathwayMiner
4.0
544
 
3.0
1912
 
2.1
743
 
2.0
434
 
1.0
671
KGMLReader
0.151
2659
 
0.15
2046
 
0.11
575
 
0.10
1360
 
0.06
1655
KNIMEConnector
1.1
1142
 
1.0
850
LayoutSaverPlugin
1.0
1325
Mark
2
0
mcl-new
1.1
674
MCODE
1.32
9936
 
1.31
6448
 
1.3
6890
 
1.2
3043
MetaNetter
2.1
2734
MetaNodePlugin2
1.6
1949
 
1.5
1409
 
1.2
1856
 
1.1
1382
 
1.01
1481
 
1.0
1395
MetScape
2.33
2438
 
2.32
1930
 
2.31
1679
 
2.3
998
 
2.21
186
 
2.2
21
 
2.11
375
 
2.0
256
 
1.01
1926
 
1.0
1250
 
0.8
1756
MiMIplugin
3.11
6145
 
3.1
1181
 
3.01
4218
 
3.0
1701
 
2.2
1884
 
2.1
1665
 
2.0
1665
MINE
1.5
2034
 
1.0
1001
MiSink
2.04
1971
 
2.03
1343
 
2.00
1557
ModuLand
1.5
0
 
1.4
0
MONET
2.1
1517
 
2.01
895
 
1.1
2014
Mosaic
1.1
1419
 
1.0
1429
MostHighlyConnectedSubgraphPlugin
1.0
654
MultiColoredNodes
2.540
1874
 
2.533
236
 
2.500
889
 
2.432
438
MultilevelLayoutPlugin
0.6
2038
 
0.41
1930
 
0.4
307
NamedSelection
1.5
1354
 
1.2
1919
 
1.1
1431
 
1.0
2419
NatureProtocolsWorkflow
1.0
3333
NCBIClient
0.92
2996
 
0.70
7659
NCBIEntrezGeneUserInterface
0.52
11400
NDBReaderPlugin
0.1
738
NeighborHighlight
1.0
4785
NeMo
1.4
3711
 
1.3
1313
NetAtlas
1.2
1077
 
1.1
1494
NetCirChro
1.0
890
NetDS
3.0
1276
NetLink
0.1
2335
netMatch
2.2
2063
 
2.1
2481
NetTwo
0.1
656
NetworkEvolution
2.1
1166
NetworkPrioritizer
1.01
0
NOA
1.1
1660
 
1.0
493
nodeCharts
0.94
3110
 
0.92
834
 
0.91
812
 
0.91
18
OrthoNets
1.0
1346
OWLPlugin
1.0
1298
PanGIA
1.1
1676
 
1.0
743
Pathintegrator
1.0
1766
PerturbationAnalyzer
1.2
1572
 
1.1
491
 
1.0
766
 
0.2
623
 
0.1
718
PhosphositePlus Web Service Client Module
1.0
0
PhyloTree
0.1
1945
PICRClient
0.2
1953
PINA4MS
1.1
338
 
1.0
370
PiNGO
1.11
3868
 
1.10
1001
 
1.00
1465
PinnacleZ
1.1
2054
 
1.0
1366
PSICQUICUniversalClient
0.31
2159
 
0.25
3907
PythonScriptingEngine
2.53
608
 
0.21
1997
RandomNetworks
1.0
5542
Reactome FIs
1.1
0
 
1.0beta
0
 
1.0
0
RemainingDegreeDistribution
1.0
1033
ReOrientPlugin
1.0
2024
 
0.3
1088
RINalyzer
1.3
0
RubyScriptingEngine
1.7
268
 
1.0
623
 
0.21
1093
ScriptEngineManager
1.0
1234
 
0.08
1868
SessionForWeb
3.2
1230
 
3.1
1529
 
3.0
1197
SFLDLoader
1.3
1643
 
1.2
1417
 
1.0
1526
Shashikumar
3.4.0
0
ShortestPath Plugin
1.1
6245
SimBoolNet
1.0
405
SimTrek
1.0
888
SLiMScape
1.6
761
 
1.5
198
 
1.2
181
 
1.0
238
SPNConverter
1.0
452
STOP
1.0
748
StringWSClient
1.2
4759
 
1.1
1651
 
1.0
1183
structureViz
1.9
1895
 
1.3
2230
 
1.2
1484
 
1.0
1888
SubnetworkCreator
1.2
991
 
1.1
580
 
1.0
1318
Sudy
2.9.3
0
Superpathways-Plugin
1.2
1902
 
1.0
1607
TransClust
1.01
1742
 
1.0
1980
VennDiagramGenerator
1.4
2903
 
1.02
1761
 
1.0
1465
VennDiagrams
0.5
1075
 
0.3
1360
Viacomplex for Cytoscape
1.0
0
VistaClaraPlugin
1.05
3824
 
1.02
2029
 
1.01
2438
 
1.0
1639
 
0.20
180
WordCloud
1.0
2041
 
1.0
0