Since the release of Cytoscape 2.5 (July 2007), there are 102619 users (distinct IP addresses) downloaded plugins from this site. Total download count is 764273.

 

Plugin Name
version
Total download

Total downlaod

last 30 days

3DScape
0.4
0
 
0.2
0
3DScapeCS
0.6
1811
addParentNeighbors
1.0
1842
AdvancedNetworkMerge
1.12
2199
 
1.10
1854
 
1.05
714
 
1.04
445
AgilentLiteratureSearch
2.78
4286
 
2.77
15717
 
2.76
5703
 
2.71
4764
 
2.70
7556
 
2.69
1472
 
2.68
2714
 
2.55
8537
 
2.54
382
AllegroLayout
1.1
774
 
1.0
165
AllegroMCODE
2.1
1816
 
2.0
403
 
1.0
4219
AlternativeTableImport
1.3
559
 
1.2
289
 
1.1
258
 
1.0
279
APCluster
2.1
2009
APID2NET
1.52
6218
 
1.51
1769
 
1.5
2116
batchTool
1.0
1610
 
0.5
1222
BiNAT
1.0
0
BiNGO
2.44
23732
 
2.42
3731
 
2.31
6330
 
2.3
16295
 
2.1
9323
 
2.0
1052
BiNoM
2.5
938
 
2.4
31
 
2.3
103
 
2.2
264
 
2.1
280
 
2.0
307
 
1.0
2778
bioCycPlugin
0.9
2661
BiogridPlugin
0.2
1032
 
0.1
3932
BiomartClient
0.90
2821
 
0.80
6556
BioNetBuilder
2.0
5735
BioQualiPlugin
2.0
1263
 
1.1
1907
 
1.0
1268
BisoGenet
1.41
3048
 
1.40
1172
BLAST2SimilarityGraph
1.01
2852
 
1.0
2165
BNMatch
1.1
664
 
1.0
426
BubbleRouter
1.1
3389
 
1.0
2635
CABIN
2.1
3163
CalculateNodeDegree
1.0
1545
CARLSBAD
1.1
394
 
1.0
71
CellFateScout
0.95
137
CentiScaPe
1.21
2604
 
1.2
2113
 
1.1
1586
 
1.0
3629
ChartPlugin
1.1
730
 
1.0
367
ChemViz
1.3
357
 
1.1
2010
ClojureEngine
1.0
362
ClueGO
1.8
1783
 
1.71
632
 
1.7
199
 
1.6
103
 
1.5
313
 
1.4
2765
 
1.31
1327
 
1.3
1592
 
1.2
1889
 
1.1
1590
CluePedia
1.3
692
 
1.21
296
 
1.2
64
 
1.1
51
 
1.0
151
clusterExplorerPlugin
1.01
1824
 
1.0
1719
 
0.9
1818
clusterMaker
1.9
3687
 
1.8
1051
 
1.6
3045
 
1.5
832
 
1.11
1659
 
1.10
5226
 
1.1
1864
 
1.0
2466
ClusterONE
0.93
2480
 
0.92
678
 
0.91
1243
 
0.9
935
 
0.1
958
ClusterViz
1.2
3159
 
1.1
1316
 
1.0
1398
ClustnSee
1.0
1280
COMA
1.101
2084
 
1.1
1209
 
1.0
1251
commandTool
0.91
1911
 
0.9
1062
CommFinder
1.1
1554
CommonAttributes
2.0
1984
 
1.3
1363
ConReg
0.1
377
ConsensusPathDBplugin
1.0
1853
ContigScape
1.0
413
coreCommands
0.9
1257
CoryneRegNetLoader
1.101
1667
 
1.1
1276
 
1.0
1078
CyAnimator
0.9
2710
CyClus3D
3.3
1237
 
3.1
674
CyGoose
2.9
1005
 
2.8
788
 
2.7
1239
 
2.6
1336
 
2.5
1206
 
2.10
823
CyKEGGParser
1.3
875
 
1.1
600
 
1.0
549
Cyrface
1.0
866
 
0.2
485
CySBGN
1.2
751
 
1.1
169
 
1.0
365
CySBML
1.2
1730
cySBML
0.5
0
CyTableReaderPlugin
0.1
469
CyTargetLinker
2.1
865
 
2.0
748
 
1.0
905
CyThesaurus-ID-Mapping
1.31
2835
 
1.30
207
 
1.20
798
 
1.11
908
 
1.10
461
 
1.04
729
 
1.03
544
 
1.02
12
 
1.01
58
 
1.0
12
CytoCopteR
1.2
634
 
1.1
385
 
1.0
392
CytoHiCPlugin
1.1
406
 
1.0
475
cytoHubba
1.6
3202
 
1.5
839
 
1.4
753
 
1.3
407
 
1.2
652
 
1.1
1754
 
1.0
1349
CytoITMprobe
1.5
548
 
1.4
335
CytoKavosh
1.1
1474
 
1.0
456
Cytomcl
1.1
1303
 
1.1
1640
 
1.0
994
 
1.0
0
Cytoprophet
1.0
3346
CytoSaddleSum
1.5
847
 
1.4
428
CytoscapeRPC
1.8
4371
 
1.7
756
 
1.6
775
 
1.5
469
 
1.4
479
 
1.3
677
 
1.2
711
 
1.1
481
 
1.0
762
CytoSEED
1.1
543
 
1.0
144
CytoSeVis
1.0
632
CytoSQL
1.0
1367
 
0.9
829
DisGeNET
1.02
0
DisplayNetworkFromFlatFile
1.0
1198
DomainGraph
3.01
1713
 
2.01
1768
 
2.0
759
DroID
1.0
2172
DualLayout
0.01
1230
DvD
1.0
258
dynamicXpr
1.3
3086
 
1.2
1938
edgeLengthPlugin
1.1
1825
 
1.0
1365
edgeLister
1.2
1211
 
1.1
1536
EnhancedSearch
1.2
3383
 
1.1
3493
 
1.0
1549
EnrichmentMap
1.3
1004
 
1.2
4738
 
1.1
1043
 
1.0
846
ENViz
1.1
986
 
1.0
681
ExprEssence
1.20
1443
ExpressionCorrelation
1.01
4729
 
1.0
1439
FluxViz
0.12
924
 
0.09
622
FM3
1.1
1825
FNodeAtt
0.9
382
FreemakeSliderPlugin
1.0
0
FunNetViz
1.0
1249
GALANT
1.0
0
GASOLINE
1.0
454
GeneMANIA
3.2
3026
 
3.1
772
 
3.0
538
 
2.5
1533
 
2.4
1099
 
2.3
788
 
2.2
1277
 
2.1
896
 
2.0
839
 
1.0
826
GenomeSpaceLibsPlugin
0.1
202
GenomeSpacePlugin
0.1
566
Genoscape
1.2
2572
 
1.11
1170
 
1.1
974
GESTODifferent
1.0
0
GFD-Net
1.0
464
GIANT
1.0
0
GoogleChartFunctions
1.1
2436
GPEC
1.1
1277
GPML-Plugin
1.4
1619
 
1.3
1586
 
1.2
1247
 
1.1
960
 
1.0
709
 
0.9
766
 
0.8
1046
 
0.7
686
 
0.6
711
 
0.5
595
 
0.4
761
 
0.3
1228
 
0.2
1076
 
0.1
1100
GraMoFoNe
0.12
570
GraphletCounter
1.2
1430
 
1.0
821
GraphMLReader
0.11
3421
GroovyEngine
1.0
628
GroovyScriptingEngine
0.11
1161
GroupTool
1.3
1409
 
1.2
1763
 
1.1
1318
 
1.0
1595
HiderSlider
1.0
2333
HOMECAT
1.2
385
 
1.1
119
 
1.0
200
HyperEdgeEditor
2.68
1180
 
2.66
1214
 
2.65
793
 
2.62
1748
 
2.61
1512
 
2.60
1163
 
2.56
593
 
2.53
395
iCTNet
0.1
921
IDSwitcher
1.0
802
IgraphPlugin
0.1
965
IntActWSClient
0.66
2332
Interference
1.0
1298
iRefScape
1.18
1719
 
1.17
242
 
1.16
309
 
0.90
723
 
0.89
426
 
0.88
254
 
0.87
267
 
0.86
283
 
0.82
359
iRegulon
1.3
87
 
1.2
82
 
1.1
283
 
1.0
38
jActiveModules
2.23
8825
 
2.22
1503
 
2.21
1501
 
2.2
5498
JavaScriptEngine
1.0
1006
 
0.11
1100
KeyPathwayMiner
4.0
425
 
3.0
1800
 
2.1
586
 
2.0
375
 
1.0
530
KGMLReader
0.151
2421
 
0.15
1910
 
0.11
460
 
0.10
1252
 
0.06
1531
KNIMEConnector
1.1
929
 
1.0
744
LayoutSaverPlugin
1.0
1202
Mark
2
0
mcl-new
1.1
554
MCODE
1.32
9647
 
1.31
6334
 
1.3
6690
 
1.2
2915
MetaNetter
2.1
2543
MetaNodePlugin2
1.6
1812
 
1.5
1330
 
1.2
1750
 
1.1
1310
 
1.01
1413
 
1.0
1314
MetScape
2.33
2313
 
2.32
1694
 
2.31
1595
 
2.3
893
 
2.21
186
 
2.2
18
 
2.11
374
 
2.0
255
 
1.01
1778
 
1.0
1119
 
0.8
1594
MiMIplugin
3.11
5907
 
3.1
1061
 
3.01
4074
 
3.0
1621
 
2.2
1793
 
2.1
1575
 
2.0
1564
MINE
1.5
1854
 
1.0
907
MiSink
2.04
1794
 
2.03
1211
 
2.00
1451
ModuLand
1.5
0
 
1.4
0
MONET
2.1
1343
 
2.01
895
 
1.1
1913
Mosaic
1.1
1208
 
1.0
1375
MostHighlyConnectedSubgraphPlugin
1.0
538
MultiColoredNodes
2.540
1589
 
2.533
190
 
2.500
791
 
2.432
333
MultilevelLayoutPlugin
0.6
1946
 
0.41
1844
 
0.4
307
NamedSelection
1.5
1279
 
1.2
1821
 
1.1
1355
 
1.0
2280
NatureProtocolsWorkflow
1.0
3242
NCBIClient
0.92
2810
 
0.70
7517
NCBIEntrezGeneUserInterface
0.52
11283
NDBReaderPlugin
0.1
608
NeighborHighlight
1.0
4484
NeMo
1.4
3540
 
1.3
1216
NetAtlas
1.2
954
 
1.1
1409
NetCirChro
1.0
813
NetDS
3.0
1115
NetLink
0.1
2257
netMatch
2.2
1914
 
2.1
2359
NetTwo
0.1
527
NetworkEvolution
2.1
1068
NetworkPrioritizer
1.01
0
NOA
1.1
1336
 
1.0
402
nodeCharts
0.94
2871
 
0.92
732
 
0.91
734
 
0.91
18
OrthoNets
1.0
1215
OWLPlugin
1.0
1188
PanGIA
1.1
1499
 
1.0
641
Pathintegrator
1.0
1708
PerturbationAnalyzer
1.2
1428
 
1.1
442
 
1.0
673
 
0.2
527
 
0.1
669
PhosphositePlus Web Service Client Module
1.0
0
PhyloTree
0.1
1716
PICRClient
0.2
1858
PINA4MS
1.1
195
 
1.0
232
PiNGO
1.11
3648
 
1.10
874
 
1.00
1324
PinnacleZ
1.1
1925
 
1.0
1294
PSICQUICUniversalClient
0.31
2059
 
0.25
3669
PythonScriptingEngine
2.53
603
 
0.21
1945
RandomNetworks
1.0
5280
Reactome FIs
1.1
0
 
1.0beta
0
 
1.0
0
RemainingDegreeDistribution
1.0
929
ReOrientPlugin
1.0
1878
 
0.3
1023
RINalyzer
1.3
0
RubyScriptingEngine
1.7
264
 
1.0
601
 
0.21
1047
ScriptEngineManager
1.0
1163
 
0.08
1772
SessionForWeb
3.2
1128
 
3.1
1443
 
3.0
1117
SFLDLoader
1.3
1536
 
1.2
1305
 
1.0
1427
ShortestPath Plugin
1.1
5954
SimBoolNet
1.0
374
SimTrek
1.0
715
SLiMScape
1.6
639
 
1.5
157
 
1.2
151
 
1.0
139
SPNConverter
1.0
346
STOP
1.0
630
StringWSClient
1.2
4553
 
1.1
1548
 
1.0
1085
structureViz
1.9
1775
 
1.3
2147
 
1.2
1406
 
1.0
1804
SubnetworkCreator
1.2
825
 
1.1
512
 
1.0
1214
Sudy
2.9.3
0
Superpathways-Plugin
1.2
1796
 
1.0
1451
TransClust
1.01
1576
 
1.0
1801
VennDiagramGenerator
1.4
2726
 
1.02
1647
 
1.0
1347
VennDiagrams
0.5
957
 
0.3
1258
Viacomplex for Cytoscape
1.0
0
VistaClaraPlugin
1.05
3513
 
1.02
1884
 
1.01
2342
 
1.0
1500
 
0.20
180
WordCloud
1.0
1831
 
1.0
0