Pathway network
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19 months ago
Arindam Ghosh ▴ 460

Is there a way to import the KEGG or Reactome pathway graphs (the interaction between genes/proteins) as igraph object or in Cytoscape?

Reactome Pathway cytoscape KEGG igraph • 577 views
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19 months ago

The whole Reactome graph is in a neo4j graph database. You can access it with the neo4r package then convert to an igraph object. Check chapter 6 of the book Using R & Neo4J. The package ReactomeGraph4R does some of the work for you.
For KEGG, try the Bioconductor KEGGgraph package.

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