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plot global edge correlation profile for differential correlation scores of edges
● Data Source:
CranContrib
● Keywords:
● Alias: PlotGlobEdgeCorProfile
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calEdgeCorScore
(Package: ESEA) :
Calculate the differential correlation score for edges
CalEdgeCorScore attempts to calculate the differential correlation scores of two genes in the edge between the expression data of all samples and control samples.
● Data Source:
CranContrib
● Keywords: file
● Alias: calEdgeCorScore
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Get the edge sets of pathways for the seven pathway database (KEGG; Biocarta; Reactome; NCI; SPIKE; HumanCyc; Panther).
● Data Source:
CranContrib
● Keywords:
● Alias: GetPathwayEdgeData
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PlotPathwayGraph
(Package: ESEA) :
Plot the pathway-result network diagram
Plot the pathway-result network diagram, the edges which contribute to the pathway enrichment score are marked with red.
● Data Source:
CranContrib
● Keywords:
● Alias: PlotPathwayGraph
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PathwayEdgeData
(Package: ESEA) :
The edge sets of pathways
The edge sets of pathways for the seven pathway database (KEGG; Biocarta; Reactome; NCI; SPIKE; HumanCyc; Panther) in the environment variable of the system.
● Data Source:
CranContrib
● Keywords: file
● Alias: PathwayEdgeData
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ExampleData
(Package: ESEA) :
The example data in the environment variable of the system
The example data in the environment variable of the system.
● Data Source:
CranContrib
● Keywords: file
● Alias: Results, class.labels, controlcharactor, dataset
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ESEA.Main
(Package: ESEA) :
Identify dysregulated pathways based on edge set enrichment analysis
A edge-centric method to identify dysregulated pathways by investigating the changes of biological relationships of pathways in the context of gene expression data.
● Data Source:
CranContrib
● Keywords:
● Alias: ESEA.Main
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EdgesBackgrandData
(Package: ESEA) :
The data for the background set of edges
The data for the background set of edges in the environment variable of the system.
● Data Source:
CranContrib
● Keywords: file
● Alias: EdgesBackgrandData
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SavePathway2File
(Package: ESEA) :
Save a pathway-result network to a file which can be input to the Cytoscape software
Save a pathway-result network to a file which can be input to the Cytoscape software.
● Data Source:
CranContrib
● Keywords:
● Alias: SavePathway2File
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envData
(Package: ESEA) :
The variables in the environment variable code{envData
The variables in the environment variable envData of the system.
● Data Source:
CranContrib
● Keywords: file
● Alias: envData
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