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All Apps
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collections
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data visualization
(75)
network generation
(58)
network analysis
(56)
graph analysis
(56)
online data import
(45)
automation
(43)
integrated analysis
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clustering
(35)
systems biology
(32)
utility
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enrichment analysis
(29)
visualization
(28)
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(28)
layout
(21)
core app
(21)
annotation
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(18)
pathway database
(17)
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local data import
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import
(17)
gene expression
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functional analysis
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scripting
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PPI-network
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interaction database
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GO annotation
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regulatory networks
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Network structure
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network dynamics
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network inference
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Topology
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heat map visualization
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export
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network manipulation
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gene regulation
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functional module detection
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disease
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cancer data analysis
(8)
attribute generation
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animation
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networks
(7)
linked data
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ID mapping
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gene-disease association
(7)
database
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centrality analysis
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simulation
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Random walk with restart algorithm
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pathway
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network partitioning
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network learning
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molecular structure
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microarrays
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grouping
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social network analysis
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R
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Protein complex
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Pathway finding
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literature mining
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Gene prioritization
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data manipulation
(5)
Connection sub-graph discovery
(5)
structural biology
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SPARQL
(4)
signaling
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set analysis
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sequence similarity
(4)
network alignment
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kegg
(4)
JavaScript
(4)
gene function prediction
(4)
gene co-expression
(4)
disease-disease association
(4)
variant analysis
(3)
shortest paths
(3)
set visualization
(3)
search
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SBML
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network repository
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inference
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genome visualization
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cluster visualization
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bayesian networks
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Core app
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Analyzer
Calculate network, node, and edge statistics for any connected network
Analyzer
Calculate network, node, and edge statistics for any connected network
(0) 2037 downloads
BioPAX Reader
Core App: Provides support for reading BioPAX files in Cytoscape
BioPAX Reader
Core App: Provides support for reading BioPAX files in Cytoscape
(41) 8928 downloads
copycatLayout
Clone a network view layout by mapping node column values
copycatLayout
Clone a network view layout by mapping node column values
(1) 4390 downloads
CX Support
Core App: CX JSON file reader and writer
CX Support
Core App: CX JSON file reader and writer
(3) 17996 downloads
CyCL
Core App: Provides OpenCL support for Cytoscape
CyCL
Core App: Provides OpenCL support for Cytoscape
(0) 4945 downloads
cyREST
Core App: Language-agnostic RESTful API
cyREST
Core App: Language-agnostic RESTful API
(4) 60715 downloads
ID Mapper
A plug-in to the BridgeDB service to provide identifier lookup. Right-click on a column header to use the "Map Column" command.
ID Mapper
A plug-in to the BridgeDB service to provide identifier lookup. Right-click on a column header to use the "Map Column" command.
(1) 8139 downloads
NetworkAnalyzer
Core App: Computes basic properties of whole network (degree distribution, clustering coefficients, centrality, etc.)
NetworkAnalyzer
Core App: Computes basic properties of whole network (degree distribution, clustering coefficients, centrality, etc.)
(10) 10975 downloads
OpenCL Prefuse Layout
Core App: Provides faster OpenCL-based version of Cytoscape Prefuse layout
OpenCL Prefuse Layout
Core App: Provides faster OpenCL-based version of Cytoscape Prefuse layout
(0) 4162 downloads
PSI-MI Reader
Core App: Provides support for reading PSI-MI files in Cytoscape
PSI-MI Reader
Core App: Provides support for reading PSI-MI files in Cytoscape
(0) 4919 downloads
Welcome Screen
Core App: Provides Cytoscape welcome screen
Welcome Screen
Core App: Provides Cytoscape welcome screen
(0) 5087 downloads
Biomart Web Service Client
Core App: Provides support for Biomart web service in Cytoscape
Biomart Web Service Client
Core App: Provides support for Biomart web service in Cytoscape
(0) 5714 downloads
Command Line Implementation
Core App: Provides Cytoscape's Command Line Dialog tool
Command Line Implementation
Core App: Provides Cytoscape's Command Line Dialog tool
(0) 3952 downloads
Core Apps
Core App: Set of apps packaged with the regular Cytoscape distribution. You do not need to install these separately.
Core Apps
Core App: Set of apps packaged with the regular Cytoscape distribution. You do not need to install these separately.
(0) 1519 downloads
cyBrowser
Core App: Add HTML Browser to Cytoscape
cyBrowser
Core App: Add HTML Browser to Cytoscape
(0) 9303 downloads
CyNDEx-2
Core App: CyNDEx-2 is a user-friendly app for browsing, importing, and exporting networks to an NDEx server.
CyNDEx-2
Core App: CyNDEx-2 is a user-friendly app for browsing, importing, and exporting networks to an NDEx server.
(4) 11539 downloads
Diffusion
Expand node selection using network propagation algorithms
Diffusion
Expand node selection using network propagation algorithms
(35) 10308 downloads
JSON Support
Core App: Provides support for reading/writing Cytoscape.js JSON files in Cytoscape
JSON Support
Core App: Provides support for reading/writing Cytoscape.js JSON files in Cytoscape
(0) 8115 downloads
Network Merge
Core App: Provides Cytoscape's Network Merge tool
Network Merge
Core App: Provides Cytoscape's Network Merge tool
(1) 12279 downloads
PSICQUIC Web Service Client
Core App: Provides support for PSICQUIC web service in Cytoscape
PSICQUIC Web Service Client
Core App: Provides support for PSICQUIC web service in Cytoscape
(0) 3916 downloads
SBML Reader
Core App: Provides support for reading SBML files in Cytoscape
SBML Reader
Core App: Provides support for reading SBML files in Cytoscape
(0) 5212 downloads
Unsupported Plugins for Cytoscape 2.x
