Since the release of Cytoscape 2.5 (July 2007), there are 107066 users (distinct IP addresses) downloaded plugins from this site. Total download count is 789045.

 

Plugin Name
version
Total download

Total downlaod

last 30 days

3DScape
0.4
0
 
0.2
0
3DScapeCS
0.6
1990
addParentNeighbors
1.0
1863
AdvancedNetworkMerge
1.12
2251
 
1.10
1914
 
1.05
714
 
1.04
445
AgilentLiteratureSearch
2.78
4602
 
2.77
18801
 
2.76
6322
 
2.71
7069
 
2.70
8369
 
2.69
1631
 
2.68
3206
 
2.55
9004
 
2.54
382
AllegroLayout
1.1
815
 
1.0
177
AllegroMCODE
2.1
1914
 
2.0
438
 
1.0
4252
AlternativeTableImport
1.3
596
 
1.2
307
 
1.1
289
 
1.0
316
APCluster
2.1
2056
APID2NET
1.52
6271
 
1.51
1814
 
1.5
2158
batchTool
1.0
1649
 
0.5
1243
BiNAT
1.0
0
BiNGO
2.44
23822
 
2.42
3733
 
2.31
6372
 
2.3
16335
 
2.1
9367
 
2.0
1052
BiNoM
2.5
997
 
2.4
31
 
2.3
104
 
2.2
264
 
2.1
280
 
2.0
307
 
1.0
2798
bioCycPlugin
0.9
2719
BiogridPlugin
0.2
1061
 
0.1
4021
BiomartClient
0.90
2846
 
0.80
6589
BioNetBuilder
2.0
5763
BioQualiPlugin
2.0
1283
 
1.1
1976
 
1.0
1278
BisoGenet
1.41
3102
 
1.40
1222
BLAST2SimilarityGraph
1.01
2968
 
1.0
2218
BNMatch
1.1
684
 
1.0
463
BubbleRouter
1.1
3426
 
1.0
2686
CABIN
2.1
3230
CalculateNodeDegree
1.0
1590
CARLSBAD
1.1
396
 
1.0
71
CellFateScout
0.95
152
CentiScaPe
1.21
2665
 
1.2
2124
 
1.1
1599
 
1.0
3640
ChartPlugin
1.1
758
 
1.0
399
ChemViz
1.3
360
 
1.1
2035
ClojureEngine
1.0
377
ClueGO
1.8
1821
 
1.71
634
 
1.7
199
 
1.6
104
 
1.5
313
 
1.4
2773
 
1.31
1328
 
1.3
1593
 
1.2
1890
 
1.1
1591
CluePedia
1.3
700
 
1.21
297
 
1.2
65
 
1.1
52
 
1.0
152
clusterExplorerPlugin
1.01
1857
 
1.0
1739
 
0.9
1849
clusterMaker
1.9
3697
 
1.8
1140
 
1.6
3097
 
1.5
856
 
1.11
1676
 
1.10
5330
 
1.1
1887
 
1.0
2519
ClusterONE
0.93
2503
 
0.92
714
 
0.91
1268
 
0.9
977
 
0.1
1003
ClusterViz
1.2
3200
 
1.1
1359
 
1.0
1444
ClustnSee
1.0
1370
COMA
1.101
2125
 
1.1
1228
 
1.0
1277
commandTool
0.91
1947
 
0.9
1094
CommFinder
1.1
1628
CommonAttributes
2.0
2020
 
1.3
1394
ConReg
0.1
387
ConsensusPathDBplugin
1.0
1925
ContigScape
1.0
442
coreCommands
0.9
1298
CoryneRegNetLoader
1.101
1716
 
1.1
1316
 
1.0
1103
CyAnimator
0.9
2744
CyClus3D
3.3
1272
 
3.1
721
CyGoose
2.9
1053
 
2.8
809
 
2.7
1284
 
2.6
1354
 
2.5
1224
 
2.10
852
CyKEGGParser
1.3
939
 
1.1
648
 
1.0
600
Cyrface
1.0
960
 
0.2
531
CySBGN
1.2
832
 
1.1
179
 
1.0
388
CySBML
1.2
1822
cySBML
0.5
0
CyTableReaderPlugin
0.1
491
CyTargetLinker
2.1
945
 
2.0
790
 
1.0
949
CyThesaurus-ID-Mapping
1.31
2969
 
1.30
246
 
1.20
812
 
1.11
915
 
1.10
472
 
1.04
759
 
1.03
557
 
1.02
12
 
1.01
58
 
1.0
12
CytoCopteR
1.2
705
 
1.1
404
 
1.0
407
CytoHiCPlugin
1.1
475
 
1.0
503
cytoHubba
1.6
3272
 
1.5
859
 
1.4
769
 
1.3
425
 
1.2
687
 
1.1
1771
 
1.0
1397
CytoITMprobe
1.5
564
 
1.4
368
CytoKavosh
1.1
1545
 
1.0
480
Cytomcl
1.1
1650
 
1.1
1341
 
1.0
0
 
1.0
1037
Cytoprophet
1.0
3372
CytoSaddleSum
1.5
862
 
1.4
444
CytoscapeRPC
1.8
4648
 
1.7
779
 
1.6
812
 
1.5
502
 
1.4
516
 
1.3
700
 
1.2
734
 
1.1
505
 
1.0
813
CytoSEED
1.1
562
 
1.0
155
CytoSeVis
1.0
673
CytoSQL
1.0
1398
 
0.9
842
DisGeNET
1.02
0
DisplayNetworkFromFlatFile
1.0
1233
DomainGraph
3.01
1751
 
2.01
1778
 
2.0
770
Dr. Shashikumar N.g
cytoscape 3.4.0
0
Dr.Shashikumar N.G.
2.x
0
DroID
1.0
2219
DualLayout
0.01
1269
DvD
1.0
269
dynamicXpr
1.3
3145
 
1.2
1983
edgeLengthPlugin
1.1
1870
 
1.0
1383
edgeLister
1.2
1211
 
1.1
1582
EnhancedSearch
1.2
3433
 
1.1
3540
 
1.0
1569
EnrichmentMap
1.3
1072
 
1.2
4763
 
1.1
1066
 
1.0
881
ENViz
1.1
1090
 
1.0
745
ExprEssence
1.20
1466
ExpressionCorrelation
1.01
4800
 
1.0
1479
FluxViz
0.12
933
 
0.09
663
FM3
1.1
1898
FNodeAtt
0.9
420
FreemakeSliderPlugin
1.0
0
FunNetViz
1.0
1275
GALANT
1.0
0
GASOLINE
1.0
539
GeneMANIA
3.2
3080
 
3.1
819
 
3.0
588
 
2.5
1579
 
2.4
1160
 
2.3
856
 
2.2
1324
 
2.1
896
 
2.0
839
 
1.0
827
GenomeSpaceLibsPlugin
0.1
203
GenomeSpacePlugin
0.1
610
Genoscape
1.2
2612
 
1.11
1190
 
1.1
1010
GESTODifferent
1.0
0
GFD-Net
1.0
501
GIANT
1.0
0
GoogleChartFunctions
1.1
2497
GPEC
1.1
1355
GPML-Plugin
1.4
1705
 
1.3
1598
 
1.2
1278
 
1.1
992
 
1.0
720
 
0.9
776
 
0.8
1059
 
0.7
699
 
0.6
721
 
0.5
612
 
0.4
773
 
0.3
1252
 
0.2
1097
 
0.1
1124
GraMoFoNe
0.12
578
GraphletCounter
1.2
1486
 
1.0
871
GraphMLReader
0.11
3611
GroovyEngine
1.0
670
GroovyScriptingEngine
0.11
1223
GroupTool
1.3
1479
 
1.2
1806
 
1.1
1348
 
1.0
1635
HiderSlider
1.0
2359
HOMECAT
1.2
402
 
1.1
131
 
1.0
211
HyperEdgeEditor
2.68
1230
 
2.66
1258
 
2.65
818
 
2.62
1773
 
2.61
1553
 
2.60
1224
 
2.56
593
 
2.53
395
iCTNet
0.1
983
IDSwitcher
1.0
827
IgraphPlugin
0.1
995
IntActWSClient
0.66
2361
Interference
1.0
1362
iRefScape
1.18
1771
 
1.17
262
 
1.16
321
 
0.90
735
 
0.89
441
 
0.88
266
 
0.87
278
 
0.86
301
 
0.82
374
iRegulon
1.3
104
 
1.2
83
 
1.1
283
 
1.0
40
jActiveModules
2.23
8894
 
2.22
1528
 
2.21
1531
 
2.2
5527
JavaScriptEngine
1.0
1032
 
0.11
1114
KeyPathwayMiner
4.0
458
 
3.0
1834
 
2.1
623
 
2.0
391
 
1.0
547
KGMLReader
0.151
2500
 
0.15
1942
 
0.11
492
 
0.10
1272
 
0.06
1556
KNIMEConnector
1.1
1012
 
1.0
775
LayoutSaverPlugin
1.0
1266
Mark
2
0
mcl-new
1.1
576
MCODE
1.32
9770
 
1.31
6361
 
1.3
6776
 
1.2
2937
MetaNetter
2.1
2608
MetaNodePlugin2
1.6
1863
 
1.5
1348
 
1.2
1790
 
1.1
1331
 
1.01
1436
 
1.0
1358
MetScape
2.33
2383
 
2.32
1804
 
2.31
1656
 
2.3
967
 
2.21
186
 
2.2
20
 
2.11
374
 
2.0
255
 
1.01
1810
 
1.0
1153
 
0.8
1644
MiMIplugin
3.11
5985
 
3.1
1107
 
3.01
4118
 
3.0
1643
 
2.2
1816
 
2.1
1604
 
2.0
1603
MINE
1.5
1940
 
1.0
929
MiSink
2.04
1836
 
2.03
1249
 
2.00
1476
ModuLand
1.5
0
 
1.4
0
MONET
2.1
1390
 
2.01
895
 
1.1
1935
Mosaic
1.1
1286
 
1.0
1402
MostHighlyConnectedSubgraphPlugin
1.0
575
MultiColoredNodes
2.540
1686
 
2.533
203
 
2.500
809
 
2.432
345
MultilevelLayoutPlugin
0.6
1975
 
0.41
1885
 
0.4
307
NamedSelection
1.5
1303
 
1.2
1860
 
1.1
1375
 
1.0
2334
NatureProtocolsWorkflow
1.0
3283
NCBIClient
0.92
2860
 
0.70
7574
NCBIEntrezGeneUserInterface
0.52
11322
NDBReaderPlugin
0.1
640
NeighborHighlight
1.0
4606
NeMo
1.4
3616
 
1.3
1243
NetAtlas
1.2
977
 
1.1
1443
NetCirChro
1.0
863
NetDS
3.0
1155
NetLink
0.1
2276
netMatch
2.2
1948
 
2.1
2376
NetTwo
0.1
555
NetworkEvolution
2.1
1090
NetworkPrioritizer
1.01
0
NOA
1.1
1451
 
1.0
445
nodeCharts
0.94
2958
 
0.92
757
 
0.91
762
 
0.91
18
OrthoNets
1.0
1238
OWLPlugin
1.0
1230
PanGIA
1.1
1562
 
1.0
690
Pathintegrator
1.0
1740
PerturbationAnalyzer
1.2
1452
 
1.1
460
 
1.0
694
 
0.2
541
 
0.1
687
PhosphositePlus Web Service Client Module
1.0
0
PhyloTree
0.1
1784
PICRClient
0.2
1890
PINA4MS
1.1
225
 
1.0
274
PiNGO
1.11
3719
 
1.10
889
 
1.00
1359
PinnacleZ
1.1
1978
 
1.0
1315
PSICQUICUniversalClient
0.31
2112
 
0.25
3783
PythonScriptingEngine
2.53
605
 
0.21
1993
RandomNetworks
1.0
5373
Reactome FIs
1.1
0
 
1.0beta
0
 
1.0
0
RemainingDegreeDistribution
1.0
977
ReOrientPlugin
1.0
1943
 
0.3
1046
RINalyzer
1.3
0
RubyScriptingEngine
1.7
266
 
1.0
617
 
0.21
1089
ScriptEngineManager
1.0
1187
 
0.08
1796
SessionForWeb
3.2
1163
 
3.1
1472
 
3.0
1138
SFLDLoader
1.3
1562
 
1.2
1335
 
1.0
1456
Shashikumar
3.4.0
0
ShortestPath Plugin
1.1
6069
SimBoolNet
1.0
391
SimTrek
1.0
753
SLiMScape
1.6
673
 
1.5
169
 
1.2
160
 
1.0
152
SPNConverter
1.0
370
STOP
1.0
685
StringWSClient
1.2
4638
 
1.1
1573
 
1.0
1131
structureViz
1.9
1821
 
1.3
2180
 
1.2
1426
 
1.0
1840
SubnetworkCreator
1.2
884
 
1.1
532
 
1.0
1257
Sudy
2.9.3
0
Superpathways-Plugin
1.2
1862
 
1.0
1509
TransClust
1.01
1621
 
1.0
1865
VennDiagramGenerator
1.4
2792
 
1.02
1680
 
1.0
1390
VennDiagrams
0.5
984
 
0.3
1275
Viacomplex for Cytoscape
1.0
0
VistaClaraPlugin
1.05
3668
 
1.02
1920
 
1.01
2364
 
1.0
1532
 
0.20
180
WordCloud
1.0
0
 
1.0
1894