Since the release of Cytoscape 2.5 (July 2007), there are 110066 users (distinct IP addresses) downloaded plugins from this site. Total download count is 810335.

 

Plugin Name
version
Total download

Total downlaod

last 30 days

3DScape
0.4
0
 
0.2
0
3DScapeCS
0.6
2135
addParentNeighbors
1.0
1877
AdvancedNetworkMerge
1.12
2326
 
1.10
1974
 
1.05
714
 
1.04
445
AgilentLiteratureSearch
2.78
5169
 
2.77
21636
 
2.76
6633
 
2.71
7491
 
2.70
9621
 
2.69
1928
 
2.68
3451
 
2.55
9327
 
2.54
383
AllegroLayout
1.1
856
 
1.0
200
AllegroMCODE
2.1
1919
 
2.0
439
 
1.0
4315
AlternativeTableImport
1.3
661
 
1.2
351
 
1.1
358
 
1.0
363
APCluster
2.1
2108
APID2NET
1.52
6320
 
1.51
1838
 
1.5
2204
batchTool
1.0
1669
 
0.5
1260
BiNAT
1.0
0
BiNGO
2.44
23850
 
2.42
3737
 
2.31
6376
 
2.3
16338
 
2.1
9367
 
2.0
1052
BiNoM
2.5
1031
 
2.4
31
 
2.3
104
 
2.2
264
 
2.1
280
 
2.0
307
 
1.0
2848
bioCycPlugin
0.9
2792
BiogridPlugin
0.2
1083
 
0.1
4073
BiomartClient
0.90
2880
 
0.80
6623
BioNetBuilder
2.0
5805
BioQualiPlugin
2.0
1327
 
1.1
2019
 
1.0
1282
BisoGenet
1.41
3116
 
1.40
1231
BLAST2SimilarityGraph
1.01
3074
 
1.0
2274
BNMatch
1.1
710
 
1.0
490
BubbleRouter
1.1
3473
 
1.0
2755
CABIN
2.1
3281
CalculateNodeDegree
1.0
1609
CARLSBAD
1.1
396
 
1.0
72
CellFateScout
0.95
194
CentiScaPe
1.21
2712
 
1.2
2134
 
1.1
1627
 
1.0
3666
ChartPlugin
1.1
778
 
1.0
438
ChemViz
1.3
361
 
1.1
2053
ClojureEngine
1.0
396
ClueGO
1.8
1849
 
1.71
634
 
1.7
199
 
1.6
104
 
1.5
313
 
1.4
2780
 
1.31
1328
 
1.3
1593
 
1.2
1890
 
1.1
1592
CluePedia
1.3
707
 
1.21
297
 
1.2
65
 
1.1
52
 
1.0
152
clusterExplorerPlugin
1.01
1888
 
1.0
1764
 
0.9
1892
clusterMaker
1.9
3742
 
1.8
1183
 
1.6
3144
 
1.5
875
 
1.11
1700
 
1.10
5390
 
1.1
1907
 
1.0
2570
ClusterONE
0.93
2533
 
0.92
772
 
0.91
1309
 
0.9
1008
 
0.1
1053
ClusterViz
1.2
3207
 
1.1
1402
 
1.0
1490
ClustnSee
1.0
1431
COMA
1.101
2146
 
1.1
1247
 
1.0
1299
commandTool
0.91
1974
 
0.9
1124
CommFinder
1.1
1707
CommonAttributes
2.0
2044
 
1.3
1416
ConReg
0.1
398
ConsensusPathDBplugin
1.0
1977
ContigScape
1.0
492
coreCommands
0.9
1342
CoryneRegNetLoader
1.101
1743
 
1.1
1341
 
1.0
1124
CyAnimator
0.9
2770
CyClus3D
3.3
1310
 
3.1
754
CyGoose
2.9
1083
 
2.8
833
 
2.7
1315
 
2.6
1388
 
2.5
1264
 
2.10
877
CyKEGGParser
1.3
956
 
1.1
654
 
1.0
612
Cyrface
1.0
1043
 
0.2
570
CySBGN
1.2
899
 
1.1
189
 
1.0
443
CySBML
1.2
1853
cySBML
0.5
0
CyTableReaderPlugin
0.1
523
CyTargetLinker
2.1
1036
 
2.0
853
 
1.0
991
CyThesaurus-ID-Mapping
1.31
3143
 
1.30
286
 
1.20
845
 
1.11
934
 
1.10
486
 
1.04
788
 
1.03
589
 
1.02
12
 
1.01
58
 
1.0
12
CytoCopteR
1.2
729
 
1.1
412
 
1.0
441
CytoHiCPlugin
1.1
515
 
1.0
531
cytoHubba
1.6
3348
 
1.5
893
 
1.4
801
 
1.3
456
 
1.2
739
 
1.1
1823
 
1.0
1433
CytoITMprobe
1.5
602
 
1.4
403
CytoKavosh
1.1
1621
 
1.0
521
Cytomcl
1.1
1670
 
1.1
1364
 
1.0
1069
 
1.0
0
Cytoprophet
1.0
3421
CytoSaddleSum
1.5
877
 
1.4
468
CytoscapeRPC
1.8
4787
 
1.7
795
 
1.6
832
 
1.5
527
 
1.4
535
 
1.3
722
 
1.2
750
 
1.1
517
 
1.0
865
CytoSEED
1.1
581
 
1.0
160
CytoSeVis
1.0
695
CytoSQL
1.0
1461
 
0.9
875
DisGeNET
1.02
0
DisplayNetworkFromFlatFile
1.0
1249
DomainGraph
3.01
1794
 
2.01
1805
 
2.0
791
Dr. Shashikumar N.g
cytoscape 3.4.0
0
Dr.Shashikumar N.G.
2.x
0
DroID
1.0
2283
DualLayout
0.01
1303
DvD
1.0
272
dynamicXpr
1.3
3175
 
1.2
2012
edgeLengthPlugin
1.1
1898
 
1.0
1401
edgeLister
1.2
1211
 
1.1
1620
EnhancedSearch
1.2
3478
 
1.1
3588
 
1.0
1608
EnrichmentMap
1.3
1137
 
1.2
4790
 
1.1
1091
 
1.0
930
ENViz
1.1
1137
 
1.0
776
ExprEssence
1.20
1516
ExpressionCorrelation
1.01
4870
 
1.0
1541
FluxViz
0.12
972
 
0.09
742
FM3
1.1
1958
FNodeAtt
0.9
447
FreemakeSliderPlugin
1.0
0
FunNetViz
1.0
1277
GALANT
1.0
0
GASOLINE
1.0
599
GeneMANIA
3.2
3093
 
3.1
824
 
3.0
620
 
2.5
1587
 
2.4
1205
 
2.3
917
 
2.2
1352
 
2.1
896
 
2.0
840
 
1.0
827
GenomeSpaceLibsPlugin
0.1
203
GenomeSpacePlugin
0.1
651
Genoscape
1.2
2671
 
1.11
1216
 
1.1
1039
GESTODifferent
1.0
0
GFD-Net
1.0
544
GIANT
1.0
0
GoogleChartFunctions
1.1
2555
GPEC
1.1
1367
GPML-Plugin
1.4
1880
 
1.3
1599
 
1.2
1366
 
1.1
1056
 
1.0
769
 
0.9
787
 
0.8
1099
 
0.7
730
 
0.6
755
 
0.5
651
 
0.4
809
 
0.3
1312
 
0.2
1145
 
0.1
1198
GraMoFoNe
0.12
604
GraphletCounter
1.2
1534
 
1.0
909
GraphMLReader
0.11
3757
GroovyEngine
1.0
671
GroovyScriptingEngine
0.11
1272
GroupTool
1.3
1514
 
1.2
1829
 
1.1
1378
 
1.0
1654
HiderSlider
1.0
2379
HOMECAT
1.2
410
 
1.1
138
 
1.0
219
HyperEdgeEditor
2.68
1283
 
2.66
1297
 
2.65
843
 
2.62
1805
 
2.61
1579
 
2.60
1257
 
2.56
593
 
2.53
396
iCTNet
0.1
1052
IDSwitcher
1.0
849
IgraphPlugin
0.1
1070
IntActWSClient
0.66
2399
Interference
1.0
1404
iRefScape
1.18
1822
 
1.17
276
 
1.16
356
 
0.90
751
 
0.89
459
 
0.88
280
 
0.87
309
 
0.86
343
 
0.82
399
iRegulon
1.3
108
 
1.2
83
 
1.1
283
 
1.0
40
jActiveModules
2.23
8966
 
2.22
1553
 
2.21
1565
 
2.2
5564
JavaScriptEngine
1.0
1056
 
0.11
1146
KeyPathwayMiner
4.0
485
 
3.0
1865
 
2.1
673
 
2.0
407
 
1.0
598
KGMLReader
0.151
2571
 
0.15
1973
 
0.11
523
 
0.10
1306
 
0.06
1594
KNIMEConnector
1.1
1073
 
1.0
812
LayoutSaverPlugin
1.0
1290
Mark
2
0
mcl-new
1.1
614
MCODE
1.32
9846
 
1.31
6403
 
1.3
6833
 
1.2
2978
MetaNetter
2.1
2673
MetaNodePlugin2
1.6
1903
 
1.5
1366
 
1.2
1812
 
1.1
1353
 
1.01
1455
 
1.0
1374
MetScape
2.33
2410
 
2.32
1867
 
2.31
1662
 
2.3
985
 
2.21
186
 
2.2
21
 
2.11
375
 
2.0
256
 
1.01
1864
 
1.0
1205
 
0.8
1692
MiMIplugin
3.11
6064
 
3.1
1141
 
3.01
4161
 
3.0
1668
 
2.2
1839
 
2.1
1634
 
2.0
1628
MINE
1.5
1978
 
1.0
961
MiSink
2.04
1903
 
2.03
1281
 
2.00
1510
ModuLand
1.5
0
 
1.4
0
MONET
2.1
1439
 
2.01
895
 
1.1
1974
Mosaic
1.1
1338
 
1.0
1420
MostHighlyConnectedSubgraphPlugin
1.0
618
MultiColoredNodes
2.540
1773
 
2.533
216
 
2.500
826
 
2.432
380
MultilevelLayoutPlugin
0.6
1995
 
0.41
1902
 
0.4
307
NamedSelection
1.5
1329
 
1.2
1880
 
1.1
1402
 
1.0
2376
NatureProtocolsWorkflow
1.0
3301
NCBIClient
0.92
2919
 
0.70
7617
NCBIEntrezGeneUserInterface
0.52
11365
NDBReaderPlugin
0.1
687
NeighborHighlight
1.0
4703
NeMo
1.4
3664
 
1.3
1267
NetAtlas
1.2
1019
 
1.1
1469
NetCirChro
1.0
874
NetDS
3.0
1211
NetLink
0.1
2290
netMatch
2.2
1991
 
2.1
2417
NetTwo
0.1
585
NetworkEvolution
2.1
1111
NetworkPrioritizer
1.01
0
NOA
1.1
1549
 
1.0
467
nodeCharts
0.94
3042
 
0.92
785
 
0.91
784
 
0.91
18
OrthoNets
1.0
1286
OWLPlugin
1.0
1265
PanGIA
1.1
1612
 
1.0
711
Pathintegrator
1.0
1754
PerturbationAnalyzer
1.2
1503
 
1.1
472
 
1.0
729
 
0.2
560
 
0.1
702
PhosphositePlus Web Service Client Module
1.0
0
PhyloTree
0.1
1870
PICRClient
0.2
1911
PINA4MS
1.1
262
 
1.0
310
PiNGO
1.11
3792
 
1.10
940
 
1.00
1400
PinnacleZ
1.1
2012
 
1.0
1339
PSICQUICUniversalClient
0.31
2131
 
0.25
3857
PythonScriptingEngine
2.53
606
 
0.21
1993
RandomNetworks
1.0
5456
Reactome FIs
1.1
0
 
1.0beta
0
 
1.0
0
RemainingDegreeDistribution
1.0
1006
ReOrientPlugin
1.0
1982
 
0.3
1061
RINalyzer
1.3
0
RubyScriptingEngine
1.7
266
 
1.0
617
 
0.21
1090
ScriptEngineManager
1.0
1208
 
0.08
1835
SessionForWeb
3.2
1196
 
3.1
1495
 
3.0
1156
SFLDLoader
1.3
1596
 
1.2
1372
 
1.0
1492
Shashikumar
3.4.0
0
ShortestPath Plugin
1.1
6152
SimBoolNet
1.0
399
SimTrek
1.0
810
SLiMScape
1.6
712
 
1.5
177
 
1.2
167
 
1.0
175
SPNConverter
1.0
401
STOP
1.0
710
StringWSClient
1.2
4701
 
1.1
1622
 
1.0
1152
structureViz
1.9
1848
 
1.3
2211
 
1.2
1450
 
1.0
1857
SubnetworkCreator
1.2
935
 
1.1
553
 
1.0
1284
Sudy
2.9.3
0
Superpathways-Plugin
1.2
1874
 
1.0
1551
TransClust
1.01
1666
 
1.0
1906
VennDiagramGenerator
1.4
2857
 
1.02
1721
 
1.0
1420
VennDiagrams
0.5
1020
 
0.3
1315
Viacomplex for Cytoscape
1.0
0
VistaClaraPlugin
1.05
3733
 
1.02
1951
 
1.01
2399
 
1.0
1571
 
0.20
180
WordCloud
1.0
1971
 
1.0
0