Automating the PathLinker app for Cytoscape
Abstract
PathLinker is a graph-theoretic algorithm originally developed to reconstruct the interactions in a signaling pathway of interest. It efficiently computes multiple short paths within a background protein interaction network from the receptors to transcription factors (TFs) in a pathway. Since December 2015, PathLinker has been available as an app for Cytoscape. This paper describes how we automated the app to use the CyRest infrastructure and how users can incorporate PathLinker into their software pipelines.
Document Details
- Document Type
- Pub Defense Publication
- Publication Date
- Jun 12, 2018
- Source ID
- 10.12688/f1000research.14616.1
Entities
People
- Jeffrey N Law
- Li Jun Huang
- T M Murali
Organizations
- Intelligence Advanced Research Projects Activity
- National Science Foundation