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Categories
data visualization
(78)
network analysis
(63)
network generation
(61)
graph analysis
(60)
automation
(48)
online data import
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clustering
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utility
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systems biology
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(27)
core app
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annotation
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layout
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import
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gene expression
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network comparison
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local data import
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(16)
PPI-network
(15)
interaction database
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Network structure
(14)
scripting
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network dynamics
(13)
regulatory networks
(12)
GO annotation
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Topology
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network inference
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heat map visualization
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export
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pathway
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networks
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network manipulation
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functional module detection
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disease
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cancer data analysis
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network partitioning
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gene regulation
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database
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attribute generation
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animation
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molecular structure
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linked data
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ID mapping
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grouping
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gene-disease association
(7)
Connection sub-graph discovery
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centrality analysis
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3d visualization
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simulation
(6)
Random walk with restart algorithm
(6)
network learning
(6)
microarrays
(6)
gene co-expression
(6)
cluster visualization
(6)
social network analysis
(5)
shortest paths
(5)
sequence similarity
(5)
SBML
(5)
R
(5)
Protein complex
(5)
Pathway finding
(5)
network alignment
(5)
Gene prioritization
(5)
data manipulation
(5)
structural biology
(4)
SPARQL
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signaling
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search
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literature mining
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kegg
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JavaScript
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gene function prediction
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flux analysis
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bayesian networks
(4)
variant analysis
(3)
subnetwork extraction
(3)
set visualization
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set analysis
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python
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protein dynamics
(3)
post-translational modification
(3)
pathway reconstruction
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Pathway analysis
(3)
network repository
(3)
inference
(3)
graph clustering
(3)
genome visualization
(3)
drug repurposing
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disease module
(3)
disease-disease association
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Community detection
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Cancer
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Boolean Network
(3)
Attribute generation
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cdtReader
Read Cluster 3 output files into Cytoscape
cdtReader
Read Cluster 3 output files into Cytoscape
(0) 4321 downloads
FileWatcher
An App to Link Networks with Excel Files
FileWatcher
An App to Link Networks with Excel Files
(0) 3274 downloads
structureViz2
App to visualize macromolecular structures in a network context
structureViz2
App to visualize macromolecular structures in a network context
(4) 13751 downloads
Cyni Toolbox
Cytoscape Network Inference Toolbox puts together several tools that allow infering networks from bio data (For Cytoscape 3.1+)
Cyni Toolbox
Cytoscape Network Inference Toolbox puts together several tools that allow infering networks from bio data (For Cytoscape 3.1+)
(25) 19898 downloads
MCDS
Approximates the minimum connected dominating set (MCDS) of directed networks.
MCDS
Approximates the minimum connected dominating set (MCDS) of directed networks.
(14) 5305 downloads
Unsupported Plugins for Cytoscape 2.x
CySBML
Cytoscape Plugin for SBML
CySBML
Cytoscape Plugin for SBML
(7)
edgeLengthPlugin
Calculate edge length in the main network view window, and stores them as edge attributes "length".
edgeLengthPlugin
Calculate edge length in the main network view window, and stores them as edge attributes "length".
(0)
DomainGraph
Visualizes domain-domain interactions which connect pairs of interacting proteins.
DomainGraph
Visualizes domain-domain interactions which connect pairs of interacting proteins.
(7)
