Since the release of Cytoscape 2.5 (July 2007), there are 101756 users (distinct IP addresses) downloaded plugins from this site. Total download count is 757102.

 

Plugin Name
version
Total download

Total downlaod

last 30 days

3DScape
0.4
0
 
0.2
0
3DScapeCS
0.6
1782
addParentNeighbors
1.0
1839
AdvancedNetworkMerge
1.12
2180
 
1.10
1835
 
1.05
714
 
1.04
445
AgilentLiteratureSearch
2.78
4154
 
2.77
15458
 
2.76
5440
 
2.71
4724
 
2.70
7400
 
2.69
1471
 
2.68
2610
 
2.55
8474
 
2.54
382
AllegroLayout
1.1
771
 
1.0
164
AllegroMCODE
2.1
1735
 
2.0
336
 
1.0
4216
AlternativeTableImport
1.3
555
 
1.2
289
 
1.1
251
 
1.0
278
APCluster
2.1
2005
APID2NET
1.52
6193
 
1.51
1756
 
1.5
2103
batchTool
1.0
1597
 
0.5
1213
BiNAT
1.0
0
BiNGO
2.44
23683
 
2.42
3724
 
2.31
6260
 
2.3
16232
 
2.1
9250
 
2.0
1052
BiNoM
2.5
929
 
2.4
31
 
2.3
103
 
2.2
264
 
2.1
280
 
2.0
307
 
1.0
2775
bioCycPlugin
0.9
2642
BiogridPlugin
0.2
1022
 
0.1
3911
BiomartClient
0.90
2813
 
0.80
6547
BioNetBuilder
2.0
5733
BioQualiPlugin
2.0
1260
 
1.1
1832
 
1.0
1267
BisoGenet
1.41
2964
 
1.40
1097
BLAST2SimilarityGraph
1.01
2832
 
1.0
2152
BNMatch
1.1
657
 
1.0
416
BubbleRouter
1.1
3385
 
1.0
2626
CABIN
2.1
3083
CalculateNodeDegree
1.0
1534
CARLSBAD
1.1
394
 
1.0
71
CellFateScout
0.95
136
CentiScaPe
1.21
2600
 
1.2
2109
 
1.1
1584
 
1.0
3627
ChartPlugin
1.1
727
 
1.0
367
ChemViz
1.3
356
 
1.1
2008
ClojureEngine
1.0
362
ClueGO
1.8
1777
 
1.71
632
 
1.7
199
 
1.6
103
 
1.5
313
 
1.4
2760
 
1.31
1327
 
1.3
1592
 
1.2
1889
 
1.1
1590
CluePedia
1.3
690
 
1.21
296
 
1.2
64
 
1.1
51
 
1.0
150
clusterExplorerPlugin
1.01
1820
 
1.0
1717
 
0.9
1811
clusterMaker
1.9
3686
 
1.8
969
 
1.6
3038
 
1.5
827
 
1.11
1656
 
1.10
5197
 
1.1
1858
 
1.0
2457
ClusterONE
0.93
2476
 
0.92
666
 
0.91
1236
 
0.9
924
 
0.1
943
ClusterViz
1.2
3093
 
1.1
1307
 
1.0
1388
ClustnSee
1.0
1271
COMA
1.101
2069
 
1.1
1205
 
1.0
1243
commandTool
0.91
1899
 
0.9
1057
CommFinder
1.1
1543
CommonAttributes
2.0
1979
 
1.3
1357
ConReg
0.1
375
ConsensusPathDBplugin
1.0
1829
ContigScape
1.0
409
coreCommands
0.9
1248
CoryneRegNetLoader
1.101
1654
 
1.1
1262
 
1.0
1075
CyAnimator
0.9
2701
CyClus3D
3.3
1228
 
3.1
661
CyGoose
2.9
996
 
2.8
785
 
2.7
1229
 
2.6
1329
 
2.5
1204
 
2.10
818
CyKEGGParser
1.3
795
 
1.1
520
 
1.0
469
Cyrface
1.0
787
 
0.2
475
CySBGN
1.2
749
 
1.1
169
 
1.0
364
CySBML
1.2
1646
cySBML
0.5
0
CyTableReaderPlugin
0.1
463
CyTargetLinker
2.1
857
 
2.0
739
 
1.0
893
CyThesaurus-ID-Mapping
1.31
2811
 
1.30
205
 
1.20
797
 
1.11
907
 
1.10
460
 
1.04
727
 
1.03
541
 
1.02
12
 
1.01
58
 
1.0
12
CytoCopteR
1.2
560
 
1.1
383
 
1.0
391
CytoHiCPlugin
1.1
400
 
1.0
469
cytoHubba
1.6
3175
 
1.5
835
 
1.4
746
 
1.3
404
 
1.2
641
 
1.1
1750
 
1.0
1340
CytoITMprobe
1.5
546
 
1.4
334
CytoKavosh
1.1
1465
 
1.0
451
Cytomcl
1.1
1637
 
1.1
1300
 
1.0
981
 
1.0
0
Cytoprophet
1.0
3337
CytoSaddleSum
1.5
843
 
1.4
427
CytoscapeRPC
1.8
4315
 
1.7
749
 
1.6
770
 
1.5
465
 
1.4
473
 
1.3
670
 
1.2
705
 
1.1
474
 
1.0
751
CytoSEED
1.1
537
 
1.0
142
CytoSeVis
1.0
622
CytoSQL
1.0
1360
 
0.9
827
DisGeNET
1.02
0
DisplayNetworkFromFlatFile
1.0
1189
DomainGraph
3.01
1705
 
2.01
1768
 
2.0
757
DroID
1.0
2165
DualLayout
0.01
1224
DvD
1.0
253
dynamicXpr
1.3
3071
 
1.2
1922
edgeLengthPlugin
1.1
1816
 
1.0
1361
edgeLister
1.2
1211
 
1.1
1531
EnhancedSearch
1.2
3376
 
1.1
3486
 
1.0
1548
EnrichmentMap
1.3
987
 
1.2
4734
 
1.1
1040
 
1.0
842
ENViz
1.1
900
 
1.0
602
ExprEssence
1.20
1440
ExpressionCorrelation
1.01
4712
 
1.0
1431
FluxViz
0.12
922
 
0.09
619
FM3
1.1
1811
FNodeAtt
0.9
369
FreemakeSliderPlugin
1.0
0
FunNetViz
1.0
1240
GALANT
1.0
0
GASOLINE
1.0
436
GeneMANIA
3.2
2950
 
3.1
698
 
3.0
467
 
2.5
1458
 
2.4
1022
 
2.3
710
 
2.2
1201
 
2.1
896
 
2.0
838
 
1.0
826
GenomeSpaceLibsPlugin
0.1
201
GenomeSpacePlugin
0.1
554
Genoscape
1.2
2563
 
1.11
1165
 
1.1
969
GESTODifferent
1.0
0
GFD-Net
1.0
454
GIANT
1.0
0
GoogleChartFunctions
1.1
2430
GPEC
1.1
1185
GPML-Plugin
1.4
1595
 
1.3
1585
 
1.2
1243
 
1.1
956
 
1.0
707
 
0.9
765
 
0.8
1045
 
0.7
685
 
0.6
709
 
0.5
595
 
0.4
760
 
0.3
1223
 
0.2
1070
 
0.1
1094
GraMoFoNe
0.12
570
GraphletCounter
1.2
1418
 
1.0
810
GraphMLReader
0.11
3353
GroovyEngine
1.0
555
GroovyScriptingEngine
0.11
1086
GroupTool
1.3
1395
 
1.2
1752
 
1.1
1309
 
1.0
1585
HiderSlider
1.0
2326
HOMECAT
1.2
381
 
1.1
118
 
1.0
200
HyperEdgeEditor
2.68
1170
 
2.66
1203
 
2.65
789
 
2.62
1740
 
2.61
1501
 
2.60
1153
 
2.56
593
 
2.53
395
iCTNet
0.1
912
IDSwitcher
1.0
797
IgraphPlugin
0.1
961
IntActWSClient
0.66
2326
Interference
1.0
1221
iRefScape
1.18
1710
 
1.17
242
 
1.16
309
 
0.90
722
 
0.89
425
 
0.88
253
 
0.87
266
 
0.86
281
 
0.82
357
iRegulon
1.3
81
 
1.2
82
 
1.1
283
 
1.0
38
jActiveModules
2.23
8807
 
2.22
1496
 
2.21
1495
 
2.2
5491
JavaScriptEngine
1.0
999
 
0.11
1098
KeyPathwayMiner
4.0
424
 
3.0
1792
 
2.1
584
 
2.0
373
 
1.0
527
KGMLReader
0.151
2404
 
0.15
1904
 
0.11
448
 
0.10
1246
 
0.06
1525
KNIMEConnector
1.1
910
 
1.0
739
LayoutSaverPlugin
1.0
1191
Mark
2
0
mcl-new
1.1
554
MCODE
1.32
9612
 
1.31
6329
 
1.3
6669
 
1.2
2904
MetaNetter
2.1
2524
MetaNodePlugin2
1.6
1807
 
1.5
1326
 
1.2
1738
 
1.1
1305
 
1.01
1407
 
1.0
1303
MetScape
2.33
2238
 
2.32
1610
 
2.31
1517
 
2.3
820
 
2.21
186
 
2.2
18
 
2.11
374
 
2.0
254
 
1.01
1775
 
1.0
1114
 
0.8
1587
MiMIplugin
3.11
5886
 
3.1
1051
 
3.01
4059
 
3.0
1612
 
2.2
1789
 
2.1
1570
 
2.0
1552
MINE
1.5
1830
 
1.0
901
MiSink
2.04
1768
 
2.03
1199
 
2.00
1443
ModuLand
1.5
0
 
1.4
0
MONET
2.1
1337
 
2.01
895
 
1.1
1910
Mosaic
1.1
1192
 
1.0
1373
MostHighlyConnectedSubgraphPlugin
1.0
533
MultiColoredNodes
2.540
1571
 
2.533
189
 
2.500
788
 
2.432
331
MultilevelLayoutPlugin
0.6
1938
 
0.41
1835
 
0.4
307
NamedSelection
1.5
1275
 
1.2
1811
 
1.1
1352
 
1.0
2270
NatureProtocolsWorkflow
1.0
3231
NCBIClient
0.92
2799
 
0.70
7441
NCBIEntrezGeneUserInterface
0.52
11275
NDBReaderPlugin
0.1
601
NeighborHighlight
1.0
4465
NeMo
1.4
3530
 
1.3
1210
NetAtlas
1.2
950
 
1.1
1395
NetCirChro
1.0
744
NetDS
3.0
1112
NetLink
0.1
2252
netMatch
2.2
1912
 
2.1
2359
NetTwo
0.1
521
NetworkEvolution
2.1
1065
NetworkPrioritizer
1.01
0
NOA
1.1
1321
 
1.0
386
nodeCharts
0.94
2849
 
0.92
727
 
0.91
722
 
0.91
18
OrthoNets
1.0
1213
OWLPlugin
1.0
1181
PanGIA
1.1
1491
 
1.0
634
Pathintegrator
1.0
1707
PerturbationAnalyzer
1.2
1424
 
1.1
441
 
1.0
670
 
0.2
525
 
0.1
668
PhosphositePlus Web Service Client Module
1.0
0
PhyloTree
0.1
1710
PICRClient
0.2
1844
PINA4MS
1.1
193
 
1.0
230
PiNGO
1.11
3619
 
1.10
873
 
1.00
1321
PinnacleZ
1.1
1915
 
1.0
1290
PSICQUICUniversalClient
0.31
1982
 
0.25
3581
PythonScriptingEngine
2.53
596
 
0.21
1873
RandomNetworks
1.0
5264
Reactome FIs
1.1
0
 
1.0beta
0
 
1.0
0
RemainingDegreeDistribution
1.0
918
ReOrientPlugin
1.0
1860
 
0.3
1015
RINalyzer
1.3
0
RubyScriptingEngine
1.7
264
 
1.0
563
 
0.21
974
ScriptEngineManager
1.0
1159
 
0.08
1766
SessionForWeb
3.2
1119
 
3.1
1437
 
3.0
1112
SFLDLoader
1.3
1532
 
1.2
1294
 
1.0
1423
ShortestPath Plugin
1.1
5923
SimBoolNet
1.0
372
SimTrek
1.0
712
SLiMScape
1.6
635
 
1.5
157
 
1.2
148
 
1.0
139
SPNConverter
1.0
341
STOP
1.0
621
StringWSClient
1.2
4537
 
1.1
1545
 
1.0
1080
structureViz
1.9
1764
 
1.3
2140
 
1.2
1404
 
1.0
1791
SubnetworkCreator
1.2
809
 
1.1
506
 
1.0
1207
Superpathways-Plugin
1.2
1715
 
1.0
1376
TransClust
1.01
1571
 
1.0
1785
VennDiagramGenerator
1.4
2706
 
1.02
1635
 
1.0
1339
VennDiagrams
0.5
956
 
0.3
1257
Viacomplex for Cytoscape
1.0
0
VistaClaraPlugin
1.05
3492
 
1.02
1876
 
1.01
2337
 
1.0
1494
 
0.20
180
WordCloud
1.0
1813
 
1.0
0