Now showing items 1-6 of 6
A compound graph layout algorithm for biological pathways
(Springer, Berlin, Heidelberg, 2004-09-10)
We present a new compound graph layout algorithm based on traditional force-directed layout scheme with extensions for nesting and other application-specific constraints. The algorithm has been successfully implemented ...
PATIKAweb: a Web service for querying, visualizing and analyzing a graph-based pathway database
(ISCB Org, 2005-06)
PATIKAweb provides a Web service for retrieving and analyzing biological pathways in PATIKA database, which currently contains data integrated from popular public pathway databases like Reactome. It features a user-friendly ...
PATIKA: An informatics infrastructure for cellular networks
(ISCB Org, 2004)
The PATIKA Project aims for an informatics infrastructure to cope with the inherently complex cellular pathway data and provides software tools with sophisticated visualization technology around a central database using ...
Algorithms for effective querying of compound graph-based pathway databases
(BioMed Central Ltd., 2009-11-16)
Background: Graph-based pathway ontologies and databases are widely used to represent data about cellular processes. This representation makes it possible to programmatically integrate cellular networks and to investigate ...
A layout algorithm for undirected compound graphs
We present an algorithm for the layout of undirected compound graphs, relaxing restrictions of previously known algorithms in regards to topology and geometry. The algorithm is based on the traditional force-directed layout ...
PATIKAweb: a Web interface for analyzing biological pathways through advanced querying and visualization
(Oxford University Press, 2006-02-01)
Summary: PATIKAweb provides a Web interface for retrieving and analyzing biological pathways in the PATIKA database, which contains data integrated from various prominent public pathway databases. It features a user-friendly ...