Since the release of Cytoscape 2.5 (July 2007), there are 108429 users (distinct IP addresses) downloaded plugins from this site. Total download count is 796977.

 

Plugin Name
version
Total download

Total downlaod

last 30 days

3DScape
0.4
0
 
0.2
0
3DScapeCS
0.6
2044
addParentNeighbors
1.0
1870
AdvancedNetworkMerge
1.12
2267
 
1.10
1926
 
1.05
714
 
1.04
445
AgilentLiteratureSearch
2.78
4808
 
2.77
19274
 
2.76
6458
 
2.71
7187
 
2.70
8594
 
2.69
1772
 
2.68
3360
 
2.55
9161
 
2.54
383
AllegroLayout
1.1
836
 
1.0
184
AllegroMCODE
2.1
1916
 
2.0
438
 
1.0
4282
AlternativeTableImport
1.3
618
 
1.2
324
 
1.1
314
 
1.0
325
APCluster
2.1
2077
APID2NET
1.52
6292
 
1.51
1826
 
1.5
2178
batchTool
1.0
1660
 
0.5
1252
BiNAT
1.0
0
BiNGO
2.44
23838
 
2.42
3736
 
2.31
6376
 
2.3
16337
 
2.1
9367
 
2.0
1052
BiNoM
2.5
1007
 
2.4
31
 
2.3
104
 
2.2
264
 
2.1
280
 
2.0
307
 
1.0
2819
bioCycPlugin
0.9
2750
BiogridPlugin
0.2
1074
 
0.1
4049
BiomartClient
0.90
2857
 
0.80
6598
BioNetBuilder
2.0
5781
BioQualiPlugin
2.0
1297
 
1.1
1999
 
1.0
1280
BisoGenet
1.41
3103
 
1.40
1223
BLAST2SimilarityGraph
1.01
2997
 
1.0
2231
BNMatch
1.1
700
 
1.0
475
BubbleRouter
1.1
3447
 
1.0
2707
CABIN
2.1
3247
CalculateNodeDegree
1.0
1597
CARLSBAD
1.1
396
 
1.0
71
CellFateScout
0.95
164
CentiScaPe
1.21
2680
 
1.2
2127
 
1.1
1607
 
1.0
3645
ChartPlugin
1.1
767
 
1.0
417
ChemViz
1.3
360
 
1.1
2051
ClojureEngine
1.0
381
ClueGO
1.8
1836
 
1.71
634
 
1.7
199
 
1.6
104
 
1.5
313
 
1.4
2776
 
1.31
1328
 
1.3
1593
 
1.2
1890
 
1.1
1591
CluePedia
1.3
705
 
1.21
297
 
1.2
65
 
1.1
52
 
1.0
152
clusterExplorerPlugin
1.01
1875
 
1.0
1748
 
0.9
1863
clusterMaker
1.9
3711
 
1.8
1160
 
1.6
3119
 
1.5
864
 
1.11
1686
 
1.10
5363
 
1.1
1897
 
1.0
2537
ClusterONE
0.93
2514
 
0.92
744
 
0.91
1287
 
0.9
992
 
0.1
1028
ClusterViz
1.2
3204
 
1.1
1379
 
1.0
1463
ClustnSee
1.0
1409
COMA
1.101
2136
 
1.1
1237
 
1.0
1291
commandTool
0.91
1963
 
0.9
1107
CommFinder
1.1
1664
CommonAttributes
2.0
2033
 
1.3
1407
ConReg
0.1
392
ConsensusPathDBplugin
1.0
1960
ContigScape
1.0
457
coreCommands
0.9
1316
CoryneRegNetLoader
1.101
1726
 
1.1
1330
 
1.0
1114
CyAnimator
0.9
2757
CyClus3D
3.3
1295
 
3.1
735
CyGoose
2.9
1073
 
2.8
817
 
2.7
1298
 
2.6
1368
 
2.5
1237
 
2.10
870
CyKEGGParser
1.3
945
 
1.1
649
 
1.0
602
Cyrface
1.0
997
 
0.2
547
CySBGN
1.2
861
 
1.1
184
 
1.0
417
CySBML
1.2
1833
cySBML
0.5
0
CyTableReaderPlugin
0.1
501
CyTargetLinker
2.1
980
 
2.0
808
 
1.0
957
CyThesaurus-ID-Mapping
1.31
3059
 
1.30
270
 
1.20
824
 
1.11
917
 
1.10
476
 
1.04
770
 
1.03
571
 
1.02
12
 
1.01
58
 
1.0
12
CytoCopteR
1.2
717
 
1.1
408
 
1.0
421
CytoHiCPlugin
1.1
497
 
1.0
520
cytoHubba
1.6
3303
 
1.5
869
 
1.4
779
 
1.3
435
 
1.2
703
 
1.1
1785
 
1.0
1410
CytoITMprobe
1.5
575
 
1.4
377
CytoKavosh
1.1
1581
 
1.0
490
Cytomcl
1.1
1656
 
1.1
1355
 
1.0
0
 
1.0
1051
Cytoprophet
1.0
3391
CytoSaddleSum
1.5
873
 
1.4
457
CytoscapeRPC
1.8
4715
 
1.7
788
 
1.6
823
 
1.5
512
 
1.4
525
 
1.3
710
 
1.2
744
 
1.1
511
 
1.0
837
CytoSEED
1.1
572
 
1.0
156
CytoSeVis
1.0
683
CytoSQL
1.0
1415
 
0.9
852
DisGeNET
1.02
0
DisplayNetworkFromFlatFile
1.0
1242
DomainGraph
3.01
1764
 
2.01
1786
 
2.0
774
Dr. Shashikumar N.g
cytoscape 3.4.0
0
Dr.Shashikumar N.G.
2.x
0
DroID
1.0
2253
DualLayout
0.01
1286
DvD
1.0
270
dynamicXpr
1.3
3161
 
1.2
1998
edgeLengthPlugin
1.1
1882
 
1.0
1392
edgeLister
1.2
1211
 
1.1
1601
EnhancedSearch
1.2
3457
 
1.1
3560
 
1.0
1579
EnrichmentMap
1.3
1101
 
1.2
4777
 
1.1
1078
 
1.0
899
ENViz
1.1
1111
 
1.0
765
ExprEssence
1.20
1485
ExpressionCorrelation
1.01
4818
 
1.0
1494
FluxViz
0.12
942
 
0.09
693
FM3
1.1
1925
FNodeAtt
0.9
434
FreemakeSliderPlugin
1.0
0
FunNetViz
1.0
1275
GALANT
1.0
0
GASOLINE
1.0
564
GeneMANIA
3.2
3084
 
3.1
821
 
3.0
598
 
2.5
1582
 
2.4
1188
 
2.3
892
 
2.2
1331
 
2.1
896
 
2.0
839
 
1.0
827
GenomeSpaceLibsPlugin
0.1
203
GenomeSpacePlugin
0.1
622
Genoscape
1.2
2633
 
1.11
1203
 
1.1
1024
GESTODifferent
1.0
0
GFD-Net
1.0
517
GIANT
1.0
0
GoogleChartFunctions
1.1
2527
GPEC
1.1
1360
GPML-Plugin
1.4
1794
 
1.3
1598
 
1.2
1327
 
1.1
1027
 
1.0
734
 
0.9
779
 
0.8
1071
 
0.7
708
 
0.6
727
 
0.5
623
 
0.4
782
 
0.3
1269
 
0.2
1110
 
0.1
1145
GraMoFoNe
0.12
580
GraphletCounter
1.2
1504
 
1.0
887
GraphMLReader
0.11
3678
GroovyEngine
1.0
670
GroovyScriptingEngine
0.11
1239
GroupTool
1.3
1498
 
1.2
1819
 
1.1
1362
 
1.0
1645
HiderSlider
1.0
2368
HOMECAT
1.2
407
 
1.1
132
 
1.0
214
HyperEdgeEditor
2.68
1247
 
2.66
1280
 
2.65
832
 
2.62
1786
 
2.61
1567
 
2.60
1238
 
2.56
593
 
2.53
395
iCTNet
0.1
1007
IDSwitcher
1.0
836
IgraphPlugin
0.1
1012
IntActWSClient
0.66
2374
Interference
1.0
1380
iRefScape
1.18
1798
 
1.17
271
 
1.16
333
 
0.90
744
 
0.89
448
 
0.88
272
 
0.87
288
 
0.86
314
 
0.82
382
iRegulon
1.3
107
 
1.2
83
 
1.1
283
 
1.0
40
jActiveModules
2.23
8927
 
2.22
1542
 
2.21
1551
 
2.2
5541
JavaScriptEngine
1.0
1046
 
0.11
1124
KeyPathwayMiner
4.0
467
 
3.0
1849
 
2.1
641
 
2.0
400
 
1.0
571
KGMLReader
0.151
2531
 
0.15
1954
 
0.11
503
 
0.10
1283
 
0.06
1576
KNIMEConnector
1.1
1038
 
1.0
789
LayoutSaverPlugin
1.0
1277
Mark
2
0
mcl-new
1.1
589
MCODE
1.32
9810
 
1.31
6380
 
1.3
6794
 
1.2
2951
MetaNetter
2.1
2631
MetaNodePlugin2
1.6
1882
 
1.5
1354
 
1.2
1801
 
1.1
1343
 
1.01
1445
 
1.0
1365
MetScape
2.33
2398
 
2.32
1832
 
2.31
1658
 
2.3
980
 
2.21
186
 
2.2
21
 
2.11
375
 
2.0
256
 
1.01
1830
 
1.0
1175
 
0.8
1662
MiMIplugin
3.11
6016
 
3.1
1124
 
3.01
4133
 
3.0
1655
 
2.2
1823
 
2.1
1617
 
2.0
1615
MINE
1.5
1959
 
1.0
942
MiSink
2.04
1871
 
2.03
1263
 
2.00
1490
ModuLand
1.5
0
 
1.4
0
MONET
2.1
1404
 
2.01
895
 
1.1
1951
Mosaic
1.1
1309
 
1.0
1404
MostHighlyConnectedSubgraphPlugin
1.0
589
MultiColoredNodes
2.540
1722
 
2.533
210
 
2.500
816
 
2.432
360
MultilevelLayoutPlugin
0.6
1987
 
0.41
1894
 
0.4
307
NamedSelection
1.5
1319
 
1.2
1872
 
1.1
1391
 
1.0
2350
NatureProtocolsWorkflow
1.0
3295
NCBIClient
0.92
2880
 
0.70
7589
NCBIEntrezGeneUserInterface
0.52
11336
NDBReaderPlugin
0.1
655
NeighborHighlight
1.0
4650
NeMo
1.4
3641
 
1.3
1253
NetAtlas
1.2
990
 
1.1
1457
NetCirChro
1.0
872
NetDS
3.0
1178
NetLink
0.1
2283
netMatch
2.2
1963
 
2.1
2394
NetTwo
0.1
567
NetworkEvolution
2.1
1097
NetworkPrioritizer
1.01
0
NOA
1.1
1496
 
1.0
459
nodeCharts
0.94
3002
 
0.92
770
 
0.91
772
 
0.91
18
OrthoNets
1.0
1257
OWLPlugin
1.0
1242
PanGIA
1.1
1581
 
1.0
702
Pathintegrator
1.0
1745
PerturbationAnalyzer
1.2
1476
 
1.1
465
 
1.0
709
 
0.2
550
 
0.1
697
PhosphositePlus Web Service Client Module
1.0
0
PhyloTree
0.1
1810
PICRClient
0.2
1901
PINA4MS
1.1
235
 
1.0
287
PiNGO
1.11
3744
 
1.10
901
 
1.00
1375
PinnacleZ
1.1
1994
 
1.0
1327
PSICQUICUniversalClient
0.31
2121
 
0.25
3817
PythonScriptingEngine
2.53
605
 
0.21
1993
RandomNetworks
1.0
5398
Reactome FIs
1.1
0
 
1.0beta
0
 
1.0
0
RemainingDegreeDistribution
1.0
987
ReOrientPlugin
1.0
1968
 
0.3
1053
RINalyzer
1.3
0
RubyScriptingEngine
1.7
266
 
1.0
617
 
0.21
1089
ScriptEngineManager
1.0
1200
 
0.08
1813
SessionForWeb
3.2
1181
 
3.1
1482
 
3.0
1146
SFLDLoader
1.3
1575
 
1.2
1349
 
1.0
1469
Shashikumar
3.4.0
0
ShortestPath Plugin
1.1
6103
SimBoolNet
1.0
397
SimTrek
1.0
785
SLiMScape
1.6
696
 
1.5
173
 
1.2
164
 
1.0
163
SPNConverter
1.0
384
STOP
1.0
700
StringWSClient
1.2
4673
 
1.1
1593
 
1.0
1144
structureViz
1.9
1835
 
1.3
2196
 
1.2
1435
 
1.0
1847
SubnetworkCreator
1.2
912
 
1.1
542
 
1.0
1274
Sudy
2.9.3
0
Superpathways-Plugin
1.2
1866
 
1.0
1521
TransClust
1.01
1650
 
1.0
1880
VennDiagramGenerator
1.4
2823
 
1.02
1695
 
1.0
1405
VennDiagrams
0.5
996
 
0.3
1295
Viacomplex for Cytoscape
1.0
0
VistaClaraPlugin
1.05
3694
 
1.02
1934
 
1.01
2375
 
1.0
1546
 
0.20
180
WordCloud
1.0
0
 
1.0
1927