Since the release of Cytoscape 2.5 (July 2007), there are 99491 users (distinct IP addresses) downloaded plugins from this site. Total download count is 743064.

 

Plugin Name
version
Total download

Total downlaod

last 30 days

3DScape
0.4
0
 
0.2
0
3DScapeCS
0.6
1714
addParentNeighbors
1.0
1819
AdvancedNetworkMerge
1.12
2157
 
1.10
1809
 
1.05
714
 
1.04
445
AgilentLiteratureSearch
2.78
3960
 
2.77
14530
 
2.76
4507
 
2.71
4589
 
2.70
6586
 
2.69
1465
 
2.68
2097
 
2.55
8127
 
2.54
382
AllegroLayout
1.1
760
 
1.0
162
AllegroMCODE
2.1
1646
 
2.0
274
 
1.0
4201
AlternativeTableImport
1.3
540
 
1.2
277
 
1.1
238
 
1.0
266
APCluster
2.1
1987
APID2NET
1.52
6162
 
1.51
1736
 
1.5
2095
batchTool
1.0
1582
 
0.5
1202
BiNAT
1.0
0
BiNGO
2.44
23622
 
2.42
3716
 
2.31
6198
 
2.3
16172
 
2.1
9179
 
2.0
1052
BiNoM
2.5
899
 
2.4
29
 
2.3
101
 
2.2
263
 
2.1
280
 
2.0
307
 
1.0
2765
bioCycPlugin
0.9
2617
BiogridPlugin
0.2
1004
 
0.1
3866
BiomartClient
0.90
2788
 
0.80
6525
BioNetBuilder
2.0
5724
BioQualiPlugin
2.0
1254
 
1.1
1755
 
1.0
1260
BisoGenet
1.41
2890
 
1.40
1020
BLAST2SimilarityGraph
1.01
2784
 
1.0
2128
BNMatch
1.1
640
 
1.0
398
BubbleRouter
1.1
3367
 
1.0
2601
CABIN
2.1
3008
CalculateNodeDegree
1.0
1503
CARLSBAD
1.1
393
 
1.0
71
CellFateScout
0.95
123
CentiScaPe
1.21
2582
 
1.2
2106
 
1.1
1576
 
1.0
3621
ChartPlugin
1.1
721
 
1.0
360
ChemViz
1.3
353
 
1.1
2007
ClojureEngine
1.0
354
ClueGO
1.8
1749
 
1.71
631
 
1.7
199
 
1.6
103
 
1.5
313
 
1.4
2758
 
1.31
1326
 
1.3
1591
 
1.2
1888
 
1.1
1588
CluePedia
1.3
680
 
1.21
295
 
1.2
63
 
1.1
50
 
1.0
149
clusterExplorerPlugin
1.01
1799
 
1.0
1711
 
0.9
1790
clusterMaker
1.9
3672
 
1.8
894
 
1.6
3011
 
1.5
811
 
1.11
1642
 
1.10
5143
 
1.1
1843
 
1.0
2431
ClusterONE
0.93
2462
 
0.92
654
 
0.91
1223
 
0.9
902
 
0.1
920
ClusterViz
1.2
3029
 
1.1
1280
 
1.0
1366
ClustnSee
1.0
1245
COMA
1.101
2050
 
1.1
1191
 
1.0
1221
commandTool
0.91
1881
 
0.9
1047
CommFinder
1.1
1474
CommonAttributes
2.0
1966
 
1.3
1341
ConReg
0.1
369
ConsensusPathDBplugin
1.0
1795
ContigScape
1.0
396
coreCommands
0.9
1229
CoryneRegNetLoader
1.101
1627
 
1.1
1239
 
1.0
1064
CyAnimator
0.9
2683
CyClus3D
3.3
1208
 
3.1
641
CyGoose
2.9
979
 
2.8
776
 
2.7
1209
 
2.6
1322
 
2.5
1196
 
2.10
803
CyKEGGParser
1.3
726
 
1.1
448
 
1.0
395
Cyrface
1.0
687
 
0.2
456
CySBGN
1.2
730
 
1.1
162
 
1.0
356
CySBML
1.2
1554
cySBML
0.5
0
CyTableReaderPlugin
0.1
457
CyTargetLinker
2.1
827
 
2.0
717
 
1.0
869
CyThesaurus-ID-Mapping
1.31
2774
 
1.30
195
 
1.20
790
 
1.11
894
 
1.10
456
 
1.04
712
 
1.03
532
 
1.02
12
 
1.01
58
 
1.0
12
CytoCopteR
1.2
484
 
1.1
377
 
1.0
383
CytoHiCPlugin
1.1
381
 
1.0
453
cytoHubba
1.6
3096
 
1.5
818
 
1.4
734
 
1.3
393
 
1.2
627
 
1.1
1739
 
1.0
1323
CytoITMprobe
1.5
537
 
1.4
320
CytoKavosh
1.1
1436
 
1.0
441
Cytomcl
1.1
1292
 
1.1
1633
 
1.0
961
 
1.0
0
Cytoprophet
1.0
3296
CytoSaddleSum
1.5
834
 
1.4
419
CytoscapeRPC
1.8
4171
 
1.7
727
 
1.6
752
 
1.5
452
 
1.4
455
 
1.3
653
 
1.2
687
 
1.1
466
 
1.0
723
CytoSEED
1.1
527
 
1.0
138
CytoSeVis
1.0
602
CytoSQL
1.0
1350
 
0.9
821
DisGeNET
1.02
0
DisplayNetworkFromFlatFile
1.0
1166
DomainGraph
3.01
1691
 
2.01
1762
 
2.0
752
DroID
1.0
2105
DualLayout
0.01
1204
DvD
1.0
250
dynamicXpr
1.3
3045
 
1.2
1900
edgeLengthPlugin
1.1
1802
 
1.0
1351
edgeLister
1.2
1209
 
1.1
1523
EnhancedSearch
1.2
3361
 
1.1
3459
 
1.0
1542
EnrichmentMap
1.3
949
 
1.2
4722
 
1.1
1025
 
1.0
821
ENViz
1.1
799
 
1.0
526
ExprEssence
1.20
1430
ExpressionCorrelation
1.01
4685
 
1.0
1416
FluxViz
0.12
918
 
0.09
597
FM3
1.1
1759
FNodeAtt
0.9
347
FunNetViz
1.0
1230
GALANT
1.0
0
GASOLINE
1.0
417
GeneMANIA
3.2
2879
 
3.1
618
 
3.0
400
 
2.5
1388
 
2.4
943
 
2.3
635
 
2.2
1127
 
2.1
892
 
2.0
836
 
1.0
822
GenomeSpaceLibsPlugin
0.1
197
GenomeSpacePlugin
0.1
532
Genoscape
1.2
2541
 
1.11
1149
 
1.1
952
GESTODifferent
1.0
0
GFD-Net
1.0
436
GIANT
1.0
0
GoogleChartFunctions
1.1
2410
GPEC
1.1
1104
GPML-Plugin
1.4
1539
 
1.3
1576
 
1.2
1217
 
1.1
949
 
1.0
685
 
0.9
762
 
0.8
1040
 
0.7
678
 
0.6
699
 
0.5
585
 
0.4
756
 
0.3
1213
 
0.2
1059
 
0.1
1079
GraMoFoNe
0.12
569
GraphletCounter
1.2
1387
 
1.0
787
GraphMLReader
0.11
3269
GroovyEngine
1.0
488
GroovyScriptingEngine
0.11
1010
GroupTool
1.3
1366
 
1.2
1734
 
1.1
1293
 
1.0
1562
HiderSlider
1.0
2307
HOMECAT
1.2
376
 
1.1
114
 
1.0
192
HyperEdgeEditor
2.68
1150
 
2.66
1184
 
2.65
777
 
2.62
1719
 
2.61
1479
 
2.60
1134
 
2.56
593
 
2.53
395
iCTNet
0.1
889
IDSwitcher
1.0
787
IgraphPlugin
0.1
943
IntActWSClient
0.66
2300
Interference
1.0
1146
iRefScape
1.18
1689
 
1.17
233
 
1.16
304
 
0.90
719
 
0.89
416
 
0.88
246
 
0.87
261
 
0.86
277
 
0.82
350
iRegulon
1.3
72
 
1.2
81
 
1.1
283
 
1.0
37
jActiveModules
2.23
8781
 
2.22
1484
 
2.21
1482
 
2.2
5476
JavaScriptEngine
1.0
976
 
0.11
1088
KeyPathwayMiner
4.0
404
 
3.0
1778
 
2.1
565
 
2.0
364
 
1.0
517
KGMLReader
0.151
2346
 
0.15
1883
 
0.11
428
 
0.10
1227
 
0.06
1511
KNIMEConnector
1.1
856
 
1.0
725
LayoutSaverPlugin
1.0
1169
Mark
2
0
mcl-new
1.1
550
MCODE
1.32
9561
 
1.31
6316
 
1.3
6633
 
1.2
2883
MetaNetter
2.1
2471
MetaNodePlugin2
1.6
1786
 
1.5
1317
 
1.2
1718
 
1.1
1293
 
1.01
1395
 
1.0
1283
MetScape
2.33
2164
 
2.32
1508
 
2.31
1444
 
2.3
741
 
2.21
186
 
2.2
17
 
2.11
373
 
2.0
252
 
1.01
1759
 
1.0
1103
 
0.8
1566
MiMIplugin
3.11
5846
 
3.1
1026
 
3.01
4040
 
3.0
1598
 
2.2
1770
 
2.1
1557
 
2.0
1532
MINE
1.5
1807
 
1.0
892
MiSink
2.04
1742
 
2.03
1174
 
2.00
1431
ModuLand
1.5
0
 
1.4
0
MONET
2.1
1326
 
2.01
895
 
1.1
1904
Mosaic
1.1
1177
 
1.0
1363
MostHighlyConnectedSubgraphPlugin
1.0
518
MultiColoredNodes
2.540
1516
 
2.533
180
 
2.500
781
 
2.432
322
MultilevelLayoutPlugin
0.6
1923
 
0.41
1815
 
0.4
307
NamedSelection
1.5
1259
 
1.2
1791
 
1.1
1336
 
1.0
2245
NatureProtocolsWorkflow
1.0
3208
NCBIClient
0.92
2777
 
0.70
7370
NCBIEntrezGeneUserInterface
0.52
11249
NDBReaderPlugin
0.1
583
NeighborHighlight
1.0
4420
NeMo
1.4
3496
 
1.3
1200
NetAtlas
1.2
927
 
1.1
1383
NetCirChro
1.0
676
NetDS
3.0
1098
NetLink
0.1
2241
netMatch
2.2
1887
 
2.1
2352
NetTwo
0.1
508
NetworkEvolution
2.1
1053
NetworkPrioritizer
1.01
0
NOA
1.1
1274
 
1.0
363
nodeCharts
0.94
2811
 
0.92
711
 
0.91
701
 
0.91
18
OrthoNets
1.0
1203
OWLPlugin
1.0
1162
PanGIA
1.1
1465
 
1.0
612
Pathintegrator
1.0
1704
PerturbationAnalyzer
1.2
1411
 
1.1
425
 
1.0
665
 
0.2
510
 
0.1
660
PhosphositePlus Web Service Client Module
1.0
0
PhyloTree
0.1
1684
PICRClient
0.2
1808
PINA4MS
1.1
183
 
1.0
215
PiNGO
1.11
3589
 
1.10
862
 
1.00
1303
PinnacleZ
1.1
1900
 
1.0
1277
PSICQUICUniversalClient
0.31
1899
 
0.25
3479
PythonScriptingEngine
2.53
588
 
0.21
1805
RandomNetworks
1.0
5187
Reactome FIs
1.1
0
 
1.0beta
0
 
1.0
0
RemainingDegreeDistribution
1.0
895
ReOrientPlugin
1.0
1829
 
0.3
997
RINalyzer
1.3
0
RubyScriptingEngine
1.7
263
 
1.0
532
 
0.21
905
ScriptEngineManager
1.0
1145
 
0.08
1750
SessionForWeb
3.2
1098
 
3.1
1415
 
3.0
1101
SFLDLoader
1.3
1516
 
1.2
1274
 
1.0
1410
ShortestPath Plugin
1.1
5863
SimBoolNet
1.0
365
SimTrek
1.0
688
SLiMScape
1.6
620
 
1.5
151
 
1.2
139
 
1.0
135
SPNConverter
1.0
324
STOP
1.0
597
StringWSClient
1.2
4501
 
1.1
1534
 
1.0
1062
structureViz
1.9
1744
 
1.3
2124
 
1.2
1389
 
1.0
1771
SubnetworkCreator
1.2
785
 
1.1
485
 
1.0
1196
Superpathways-Plugin
1.2
1637
 
1.0
1298
TransClust
1.01
1547
 
1.0
1751
VennDiagramGenerator
1.4
2662
 
1.02
1620
 
1.0
1317
VennDiagrams
0.5
949
 
0.3
1246
Viacomplex for Cytoscape
1.0
0
VistaClaraPlugin
1.05
3428
 
1.02
1862
 
1.01
2328
 
1.0
1472
 
0.20
180
WordCloud
1.0
1787
 
1.0
0