A Constrained, Force-Directed Layout Algorithm for Biological Pathways
We present a new elegant algorithm for layout of biological signaling pathways. It uses a force-directed layout scheme, taking into account directional and regional constraints enforced by different molecular interaction types and subcellular locations in a cell. The algorithm has been successfully implemented as part of a pathway integration and analysis toolkit named PATIKA and results with respect to computational complexity and quality of the layout have been found satisfactory.
KeywordsSpring Force Repulsion Force Layout Algorithm Force Versus Pathway Integration
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