Since the release of Cytoscape 2.5 (July 2007), there are 104391 users (distinct IP addresses) downloaded plugins from this site. Total download count is 773729.

 

Plugin Name
version
Total download

Total downlaod

last 30 days

3DScape
0.4
0
 
0.2
0
3DScapeCS
0.6
1881
addParentNeighbors
1.0
1852
AdvancedNetworkMerge
1.12
2218
 
1.10
1877
 
1.05
714
 
1.04
445
AgilentLiteratureSearch
2.78
4438
 
2.77
16577
 
2.76
5985
 
2.71
5087
 
2.70
7868
 
2.69
1473
 
2.68
2909
 
2.55
8705
 
2.54
382
AllegroLayout
1.1
787
 
1.0
171
AllegroMCODE
2.1
1860
 
2.0
417
 
1.0
4230
AlternativeTableImport
1.3
569
 
1.2
299
 
1.1
272
 
1.0
295
APCluster
2.1
2022
APID2NET
1.52
6253
 
1.51
1788
 
1.5
2133
batchTool
1.0
1630
 
0.5
1234
BiNAT
1.0
0
BiNGO
2.44
23772
 
2.42
3731
 
2.31
6345
 
2.3
16310
 
2.1
9340
 
2.0
1052
BiNoM
2.5
965
 
2.4
31
 
2.3
104
 
2.2
264
 
2.1
280
 
2.0
307
 
1.0
2785
bioCycPlugin
0.9
2684
BiogridPlugin
0.2
1051
 
0.1
3975
BiomartClient
0.90
2832
 
0.80
6576
BioNetBuilder
2.0
5740
BioQualiPlugin
2.0
1270
 
1.1
1932
 
1.0
1273
BisoGenet
1.41
3071
 
1.40
1194
BLAST2SimilarityGraph
1.01
2911
 
1.0
2189
BNMatch
1.1
674
 
1.0
445
BubbleRouter
1.1
3406
 
1.0
2652
CABIN
2.1
3192
CalculateNodeDegree
1.0
1569
CARLSBAD
1.1
394
 
1.0
71
CellFateScout
0.95
144
CentiScaPe
1.21
2619
 
1.2
2116
 
1.1
1594
 
1.0
3636
ChartPlugin
1.1
744
 
1.0
382
ChemViz
1.3
360
 
1.1
2022
ClojureEngine
1.0
367
ClueGO
1.8
1807
 
1.71
634
 
1.7
199
 
1.6
103
 
1.5
313
 
1.4
2768
 
1.31
1327
 
1.3
1592
 
1.2
1890
 
1.1
1590
CluePedia
1.3
697
 
1.21
296
 
1.2
65
 
1.1
52
 
1.0
152
clusterExplorerPlugin
1.01
1837
 
1.0
1728
 
0.9
1829
clusterMaker
1.9
3692
 
1.8
1083
 
1.6
3064
 
1.5
844
 
1.11
1668
 
1.10
5273
 
1.1
1877
 
1.0
2489
ClusterONE
0.93
2492
 
0.92
696
 
0.91
1254
 
0.9
955
 
0.1
980
ClusterViz
1.2
3175
 
1.1
1336
 
1.0
1418
ClustnSee
1.0
1322
COMA
1.101
2102
 
1.1
1218
 
1.0
1263
commandTool
0.91
1925
 
0.9
1075
CommFinder
1.1
1590
CommonAttributes
2.0
1999
 
1.3
1378
ConReg
0.1
382
ConsensusPathDBplugin
1.0
1887
ContigScape
1.0
428
coreCommands
0.9
1275
CoryneRegNetLoader
1.101
1688
 
1.1
1295
 
1.0
1090
CyAnimator
0.9
2733
CyClus3D
3.3
1254
 
3.1
696
CyGoose
2.9
1027
 
2.8
796
 
2.7
1258
 
2.6
1345
 
2.5
1216
 
2.10
836
CyKEGGParser
1.3
898
 
1.1
621
 
1.0
572
Cyrface
1.0
897
 
0.2
507
CySBGN
1.2
790
 
1.1
174
 
1.0
371
CySBML
1.2
1773
cySBML
0.5
0
CyTableReaderPlugin
0.1
479
CyTargetLinker
2.1
899
 
2.0
763
 
1.0
925
CyThesaurus-ID-Mapping
1.31
2873
 
1.30
212
 
1.20
805
 
1.11
909
 
1.10
471
 
1.04
740
 
1.03
549
 
1.02
12
 
1.01
58
 
1.0
12
CytoCopteR
1.2
657
 
1.1
396
 
1.0
399
CytoHiCPlugin
1.1
430
 
1.0
483
cytoHubba
1.6
3230
 
1.5
849
 
1.4
762
 
1.3
416
 
1.2
666
 
1.1
1764
 
1.0
1374
CytoITMprobe
1.5
556
 
1.4
349
CytoKavosh
1.1
1510
 
1.0
466
Cytomcl
1.1
1643
 
1.1
1320
 
1.0
1014
 
1.0
0
Cytoprophet
1.0
3358
CytoSaddleSum
1.5
855
 
1.4
436
CytoscapeRPC
1.8
4505
 
1.7
768
 
1.6
789
 
1.5
480
 
1.4
497
 
1.3
687
 
1.2
719
 
1.1
491
 
1.0
781
CytoSEED
1.1
554
 
1.0
149
CytoSeVis
1.0
653
CytoSQL
1.0
1382
 
0.9
836
DisGeNET
1.02
0
DisplayNetworkFromFlatFile
1.0
1218
DomainGraph
3.01
1729
 
2.01
1774
 
2.0
766
DroID
1.0
2191
DualLayout
0.01
1247
DvD
1.0
262
dynamicXpr
1.3
3112
 
1.2
1955
edgeLengthPlugin
1.1
1844
 
1.0
1375
edgeLister
1.2
1211
 
1.1
1549
EnhancedSearch
1.2
3405
 
1.1
3517
 
1.0
1551
EnrichmentMap
1.3
1031
 
1.2
4752
 
1.1
1054
 
1.0
866
ENViz
1.1
1023
 
1.0
702
ExprEssence
1.20
1454
ExpressionCorrelation
1.01
4755
 
1.0
1459
FluxViz
0.12
929
 
0.09
641
FM3
1.1
1873
FNodeAtt
0.9
398
FreemakeSliderPlugin
1.0
0
FunNetViz
1.0
1258
GALANT
1.0
0
GASOLINE
1.0
489
GeneMANIA
3.2
3052
 
3.1
793
 
3.0
559
 
2.5
1549
 
2.4
1120
 
2.3
810
 
2.2
1296
 
2.1
896
 
2.0
839
 
1.0
827
GenomeSpaceLibsPlugin
0.1
202
GenomeSpacePlugin
0.1
588
Genoscape
1.2
2588
 
1.11
1179
 
1.1
987
GESTODifferent
1.0
0
GFD-Net
1.0
476
GIANT
1.0
0
GoogleChartFunctions
1.1
2464
GPEC
1.1
1309
GPML-Plugin
1.4
1656
 
1.3
1592
 
1.2
1253
 
1.1
965
 
1.0
716
 
0.9
772
 
0.8
1052
 
0.7
694
 
0.6
715
 
0.5
606
 
0.4
768
 
0.3
1240
 
0.2
1085
 
0.1
1111
GraMoFoNe
0.12
577
GraphletCounter
1.2
1457
 
1.0
839
GraphMLReader
0.11
3509
GroovyEngine
1.0
644
GroovyScriptingEngine
0.11
1184
GroupTool
1.3
1441
 
1.2
1784
 
1.1
1340
 
1.0
1614
HiderSlider
1.0
2343
HOMECAT
1.2
394
 
1.1
125
 
1.0
204
HyperEdgeEditor
2.68
1204
 
2.66
1238
 
2.65
803
 
2.62
1759
 
2.61
1531
 
2.60
1187
 
2.56
593
 
2.53
395
iCTNet
0.1
947
IDSwitcher
1.0
813
IgraphPlugin
0.1
976
IntActWSClient
0.66
2354
Interference
1.0
1321
iRefScape
1.18
1744
 
1.17
251
 
1.16
313
 
0.90
728
 
0.89
434
 
0.88
258
 
0.87
269
 
0.86
289
 
0.82
367
iRegulon
1.3
100
 
1.2
83
 
1.1
283
 
1.0
40
jActiveModules
2.23
8855
 
2.22
1517
 
2.21
1515
 
2.2
5512
JavaScriptEngine
1.0
1019
 
0.11
1108
KeyPathwayMiner
4.0
436
 
3.0
1817
 
2.1
601
 
2.0
383
 
1.0
540
KGMLReader
0.151
2456
 
0.15
1924
 
0.11
479
 
0.10
1263
 
0.06
1540
KNIMEConnector
1.1
974
 
1.0
756
LayoutSaverPlugin
1.0
1229
Mark
2
0
mcl-new
1.1
562
MCODE
1.32
9700
 
1.31
6351
 
1.3
6722
 
1.2
2926
MetaNetter
2.1
2570
MetaNodePlugin2
1.6
1840
 
1.5
1341
 
1.2
1769
 
1.1
1322
 
1.01
1424
 
1.0
1334
MetScape
2.33
2343
 
2.32
1737
 
2.31
1623
 
2.3
922
 
2.21
186
 
2.2
20
 
2.11
374
 
2.0
255
 
1.01
1792
 
1.0
1135
 
0.8
1620
MiMIplugin
3.11
5943
 
3.1
1084
 
3.01
4097
 
3.0
1630
 
2.2
1805
 
2.1
1592
 
2.0
1581
MINE
1.5
1884
 
1.0
918
MiSink
2.04
1810
 
2.03
1233
 
2.00
1461
ModuLand
1.5
0
 
1.4
0
MONET
2.1
1367
 
2.01
895
 
1.1
1918
Mosaic
1.1
1241
 
1.0
1381
MostHighlyConnectedSubgraphPlugin
1.0
550
MultiColoredNodes
2.540
1626
 
2.533
198
 
2.500
799
 
2.432
340
MultilevelLayoutPlugin
0.6
1960
 
0.41
1863
 
0.4
307
NamedSelection
1.5
1289
 
1.2
1838
 
1.1
1366
 
1.0
2301
NatureProtocolsWorkflow
1.0
3262
NCBIClient
0.92
2834
 
0.70
7540
NCBIEntrezGeneUserInterface
0.52
11300
NDBReaderPlugin
0.1
622
NeighborHighlight
1.0
4520
NeMo
1.4
3573
 
1.3
1232
NetAtlas
1.2
963
 
1.1
1424
NetCirChro
1.0
832
NetDS
3.0
1133
NetLink
0.1
2265
netMatch
2.2
1927
 
2.1
2368
NetTwo
0.1
541
NetworkEvolution
2.1
1083
NetworkPrioritizer
1.01
0
NOA
1.1
1372
 
1.0
420
nodeCharts
0.94
2908
 
0.92
745
 
0.91
748
 
0.91
18
OrthoNets
1.0
1225
OWLPlugin
1.0
1212
PanGIA
1.1
1523
 
1.0
666
Pathintegrator
1.0
1719
PerturbationAnalyzer
1.2
1436
 
1.1
451
 
1.0
681
 
0.2
532
 
0.1
674
PhosphositePlus Web Service Client Module
1.0
0
PhyloTree
0.1
1740
PICRClient
0.2
1878
PINA4MS
1.1
205
 
1.0
247
PiNGO
1.11
3672
 
1.10
880
 
1.00
1338
PinnacleZ
1.1
1953
 
1.0
1304
PSICQUICUniversalClient
0.31
2080
 
0.25
3705
PythonScriptingEngine
2.53
604
 
0.21
1964
RandomNetworks
1.0
5321
Reactome FIs
1.1
0
 
1.0beta
0
 
1.0
0
RemainingDegreeDistribution
1.0
953
ReOrientPlugin
1.0
1914
 
0.3
1036
RINalyzer
1.3
0
RubyScriptingEngine
1.7
265
 
1.0
608
 
0.21
1064
ScriptEngineManager
1.0
1174
 
0.08
1783
SessionForWeb
3.2
1146
 
3.1
1457
 
3.0
1130
SFLDLoader
1.3
1551
 
1.2
1321
 
1.0
1440
ShortestPath Plugin
1.1
5985
SimBoolNet
1.0
382
SimTrek
1.0
725
SLiMScape
1.6
649
 
1.5
162
 
1.2
154
 
1.0
147
SPNConverter
1.0
356
STOP
1.0
658
StringWSClient
1.2
4585
 
1.1
1562
 
1.0
1096
structureViz
1.9
1792
 
1.3
2158
 
1.2
1416
 
1.0
1821
SubnetworkCreator
1.2
863
 
1.1
521
 
1.0
1235
Sudy
2.9.3
0
Superpathways-Plugin
1.2
1823
 
1.0
1475
TransClust
1.01
1592
 
1.0
1840
VennDiagramGenerator
1.4
2751
 
1.02
1659
 
1.0
1364
VennDiagrams
0.5
968
 
0.3
1263
Viacomplex for Cytoscape
1.0
0
VistaClaraPlugin
1.05
3573
 
1.02
1898
 
1.01
2349
 
1.0
1514
 
0.20
180
WordCloud
1.0
1854
 
1.0
0