Since the release of Cytoscape 2.5 (July 2007), there are 111442 users (distinct IP addresses) downloaded plugins from this site. Total download count is 831569.

 

Plugin Name
version
Total download

Total downlaod

last 30 days

3DScape
0.4
0
 
0.2
0
3DScapeCS
0.6
2181
addParentNeighbors
1.0
1891
AdvancedNetworkMerge
1.12
2353
 
1.10
1998
 
1.05
714
 
1.04
445
AgilentLiteratureSearch
2.78
5443
 
2.77
27684
 
2.76
6871
 
2.71
8245
 
2.70
13798
 
2.69
2193
 
2.68
3722
 
2.55
9989
 
2.54
385
AllegroLayout
1.1
879
 
1.0
227
AllegroMCODE
2.1
1921
 
2.0
442
 
1.0
4345
AlternativeTableImport
1.3
685
 
1.2
379
 
1.1
378
 
1.0
385
APCluster
2.1
2145
APID2NET
1.52
6358
 
1.51
1854
 
1.5
2220
batchTool
1.0
1691
 
0.5
1275
BiNAT
1.0
0
BiNGO
2.44
23874
 
2.42
3739
 
2.31
6377
 
2.3
16339
 
2.1
9369
 
2.0
1053
BiNoM
2.5
1044
 
2.4
31
 
2.3
104
 
2.2
264
 
2.1
281
 
2.0
307
 
1.0
2874
bioCycPlugin
0.9
2808
BiogridPlugin
0.2
1090
 
0.1
4104
BiomartClient
0.90
2896
 
0.80
6637
BioNetBuilder
2.0
5829
BioQualiPlugin
2.0
1354
 
1.1
2047
 
1.0
1291
BisoGenet
1.41
3120
 
1.40
1233
BLAST2SimilarityGraph
1.01
3121
 
1.0
2301
BNMatch
1.1
721
 
1.0
505
BubbleRouter
1.1
3483
 
1.0
2785
CABIN
2.1
3317
CalculateNodeDegree
1.0
1623
CARLSBAD
1.1
397
 
1.0
72
CellFateScout
0.95
229
CentiScaPe
1.21
2745
 
1.2
2157
 
1.1
1635
 
1.0
3670
ChartPlugin
1.1
792
 
1.0
464
ChemViz
1.3
361
 
1.1
2057
ClojureEngine
1.0
424
ClueGO
1.8
1862
 
1.71
634
 
1.7
199
 
1.6
104
 
1.5
313
 
1.4
2782
 
1.31
1329
 
1.3
1594
 
1.2
1891
 
1.1
1593
CluePedia
1.3
708
 
1.21
297
 
1.2
65
 
1.1
52
 
1.0
152
clusterExplorerPlugin
1.01
1901
 
1.0
1792
 
0.9
1926
clusterMaker
1.9
3772
 
1.8
1202
 
1.6
3169
 
1.5
887
 
1.11
1721
 
1.10
5430
 
1.1
1920
 
1.0
2591
ClusterONE
0.93
2563
 
0.92
798
 
0.91
1339
 
0.9
1038
 
0.1
1084
ClusterViz
1.2
3209
 
1.1
1424
 
1.0
1526
ClustnSee
1.0
1477
COMA
1.101
2155
 
1.1
1262
 
1.0
1312
commandTool
0.91
1987
 
0.9
1145
CommFinder
1.1
1760
CommonAttributes
2.0
2061
 
1.3
1429
ConReg
0.1
404
ConsensusPathDBplugin
1.0
1996
ContigScape
1.0
510
coreCommands
0.9
1359
CoryneRegNetLoader
1.101
1752
 
1.1
1356
 
1.0
1133
CyAnimator
0.9
2790
CyClus3D
3.3
1341
 
3.1
767
CyGoose
2.9
1096
 
2.8
848
 
2.7
1336
 
2.6
1414
 
2.5
1288
 
2.10
896
CyKEGGParser
1.3
965
 
1.1
673
 
1.0
616
Cyrface
1.0
1091
 
0.2
576
CySBGN
1.2
938
 
1.1
194
 
1.0
461
CySBML
1.2
1869
cySBML
0.5
0
CyTableReaderPlugin
0.1
543
CyTargetLinker
2.1
1071
 
2.0
876
 
1.0
1015
CyThesaurus-ID-Mapping
1.31
3174
 
1.30
359
 
1.20
850
 
1.11
961
 
1.10
494
 
1.04
795
 
1.03
622
 
1.02
12
 
1.01
58
 
1.0
12
CytoCopteR
1.2
750
 
1.1
420
 
1.0
468
CytoHiCPlugin
1.1
554
 
1.0
545
cytoHubba
1.6
3377
 
1.5
908
 
1.4
818
 
1.3
468
 
1.2
762
 
1.1
1836
 
1.0
1449
CytoITMprobe
1.5
608
 
1.4
412
CytoKavosh
1.1
1635
 
1.0
539
Cytomcl
1.1
1374
 
1.1
1696
 
1.0
1092
 
1.0
0
Cytoprophet
1.0
3454
CytoSaddleSum
1.5
887
 
1.4
477
CytoscapeRPC
1.8
4853
 
1.7
804
 
1.6
843
 
1.5
538
 
1.4
546
 
1.3
730
 
1.2
760
 
1.1
528
 
1.0
897
CytoSEED
1.1
592
 
1.0
163
CytoSeVis
1.0
707
CytoSQL
1.0
1501
 
0.9
900
DisGeNET
1.02
0
DisplayNetworkFromFlatFile
1.0
1264
DomainGraph
3.01
1821
 
2.01
1819
 
2.0
818
Dr. Shashikumar N.g
cytoscape 3.4.0
0
Dr.Shashikumar N.G.
2.x
0
DroID
1.0
2325
DualLayout
0.01
1315
DvD
1.0
277
dynamicXpr
1.3
3200
 
1.2
2025
edgeLengthPlugin
1.1
1915
 
1.0
1412
edgeLister
1.2
1211
 
1.1
1638
EnhancedSearch
1.2
3502
 
1.1
3609
 
1.0
1635
EnrichmentMap
1.3
1162
 
1.2
4813
 
1.1
1109
 
1.0
959
ENViz
1.1
1162
 
1.0
781
ExprEssence
1.20
1551
ExpressionCorrelation
1.01
4904
 
1.0
1561
FluxViz
0.12
988
 
0.09
779
FM3
1.1
1992
FNodeAtt
0.9
458
FreemakeSliderPlugin
1.0
0
FunNetViz
1.0
1279
GALANT
1.0
0
GASOLINE
1.0
621
GeneMANIA
3.2
3109
 
3.1
830
 
3.0
636
 
2.5
1608
 
2.4
1211
 
2.3
946
 
2.2
1376
 
2.1
897
 
2.0
841
 
1.0
828
GenomeSpaceLibsPlugin
0.1
203
GenomeSpacePlugin
0.1
683
Genoscape
1.2
2700
 
1.11
1232
 
1.1
1055
GESTODifferent
1.0
0
GFD-Net
1.0
566
GIANT
1.0
0
GoogleChartFunctions
1.1
2586
GPEC
1.1
1374
GPML-Plugin
1.4
1970
 
1.3
1630
 
1.2
1409
 
1.1
1092
 
1.0
802
 
0.9
814
 
0.8
1125
 
0.7
754
 
0.6
793
 
0.5
683
 
0.4
844
 
0.3
1336
 
0.2
1175
 
0.1
1235
GraMoFoNe
0.12
628
GraphletCounter
1.2
1558
 
1.0
925
GraphMLReader
0.11
3817
GroovyEngine
1.0
674
GroovyScriptingEngine
0.11
1304
GroupTool
1.3
1537
 
1.2
1849
 
1.1
1392
 
1.0
1663
HiderSlider
1.0
2390
HOMECAT
1.2
415
 
1.1
140
 
1.0
225
HyperEdgeEditor
2.68
1319
 
2.66
1304
 
2.65
860
 
2.62
1841
 
2.61
1595
 
2.60
1270
 
2.56
595
 
2.53
396
iCTNet
0.1
1084
IDSwitcher
1.0
869
IgraphPlugin
0.1
1098
IntActWSClient
0.66
2431
Interference
1.0
1434
iRefScape
1.18
1853
 
1.17
283
 
1.16
379
 
0.90
757
 
0.89
466
 
0.88
309
 
0.87
319
 
0.86
378
 
0.82
422
iRegulon
1.3
108
 
1.2
83
 
1.1
283
 
1.0
40
jActiveModules
2.23
8992
 
2.22
1569
 
2.21
1571
 
2.2
5591
JavaScriptEngine
1.0
1072
 
0.11
1172
KeyPathwayMiner
4.0
508
 
3.0
1888
 
2.1
705
 
2.0
419
 
1.0
629
KGMLReader
0.151
2611
 
0.15
2008
 
0.11
546
 
0.10
1332
 
0.06
1618
KNIMEConnector
1.1
1099
 
1.0
827
LayoutSaverPlugin
1.0
1307
Mark
2
0
mcl-new
1.1
646
MCODE
1.32
9881
 
1.31
6423
 
1.3
6859
 
1.2
3011
MetaNetter
2.1
2695
MetaNodePlugin2
1.6
1929
 
1.5
1380
 
1.2
1830
 
1.1
1365
 
1.01
1468
 
1.0
1382
MetScape
2.33
2425
 
2.32
1902
 
2.31
1670
 
2.3
994
 
2.21
186
 
2.2
21
 
2.11
375
 
2.0
256
 
1.01
1891
 
1.0
1222
 
0.8
1726
MiMIplugin
3.11
6097
 
3.1
1160
 
3.01
4188
 
3.0
1684
 
2.2
1860
 
2.1
1642
 
2.0
1650
MINE
1.5
2003
 
1.0
981
MiSink
2.04
1950
 
2.03
1302
 
2.00
1533
ModuLand
1.5
0
 
1.4
0
MONET
2.1
1471
 
2.01
895
 
1.1
1997
Mosaic
1.1
1378
 
1.0
1423
MostHighlyConnectedSubgraphPlugin
1.0
631
MultiColoredNodes
2.540
1826
 
2.533
222
 
2.500
854
 
2.432
404
MultilevelLayoutPlugin
0.6
2013
 
0.41
1914
 
0.4
307
NamedSelection
1.5
1338
 
1.2
1898
 
1.1
1414
 
1.0
2393
NatureProtocolsWorkflow
1.0
3313
NCBIClient
0.92
2950
 
0.70
7640
NCBIEntrezGeneUserInterface
0.52
11377
NDBReaderPlugin
0.1
706
NeighborHighlight
1.0
4739
NeMo
1.4
3687
 
1.3
1288
NetAtlas
1.2
1047
 
1.1
1475
NetCirChro
1.0
886
NetDS
3.0
1228
NetLink
0.1
2320
netMatch
2.2
2018
 
2.1
2451
NetTwo
0.1
626
NetworkEvolution
2.1
1134
NetworkPrioritizer
1.01
0
NOA
1.1
1597
 
1.0
475
nodeCharts
0.94
3066
 
0.92
804
 
0.91
800
 
0.91
18
OrthoNets
1.0
1310
OWLPlugin
1.0
1287
PanGIA
1.1
1639
 
1.0
727
Pathintegrator
1.0
1761
PerturbationAnalyzer
1.2
1532
 
1.1
479
 
1.0
741
 
0.2
588
 
0.1
708
PhosphositePlus Web Service Client Module
1.0
0
PhyloTree
0.1
1898
PICRClient
0.2
1929
PINA4MS
1.1
292
 
1.0
333
PiNGO
1.11
3827
 
1.10
971
 
1.00
1426
PinnacleZ
1.1
2033
 
1.0
1353
PSICQUICUniversalClient
0.31
2148
 
0.25
3889
PythonScriptingEngine
2.53
607
 
0.21
1996
RandomNetworks
1.0
5495
Reactome FIs
1.1
0
 
1.0beta
0
 
1.0
0
RemainingDegreeDistribution
1.0
1018
ReOrientPlugin
1.0
1999
 
0.3
1070
RINalyzer
1.3
0
RubyScriptingEngine
1.7
267
 
1.0
621
 
0.21
1092
ScriptEngineManager
1.0
1219
 
0.08
1843
SessionForWeb
3.2
1214
 
3.1
1512
 
3.0
1176
SFLDLoader
1.3
1618
 
1.2
1388
 
1.0
1506
Shashikumar
3.4.0
0
ShortestPath Plugin
1.1
6188
SimBoolNet
1.0
404
SimTrek
1.0
840
SLiMScape
1.6
733
 
1.5
186
 
1.2
171
 
1.0
204
SPNConverter
1.0
424
STOP
1.0
732
StringWSClient
1.2
4725
 
1.1
1634
 
1.0
1169
structureViz
1.9
1869
 
1.3
2216
 
1.2
1468
 
1.0
1875
SubnetworkCreator
1.2
963
 
1.1
568
 
1.0
1301
Sudy
2.9.3
0
Superpathways-Plugin
1.2
1894
 
1.0
1575
TransClust
1.01
1698
 
1.0
1937
VennDiagramGenerator
1.4
2876
 
1.02
1738
 
1.0
1441
VennDiagrams
0.5
1051
 
0.3
1335
Viacomplex for Cytoscape
1.0
0
VistaClaraPlugin
1.05
3766
 
1.02
1985
 
1.01
2416
 
1.0
1602
 
0.20
180
WordCloud
1.0
2002
 
1.0
0