2 projects tagged "Graph theory"
Updated 26 Oct 2012
VPLG
| Pop | 25.32 |
|---|---|
| Vit | 2.39 |
Visualization of Protein Ligand Graphs (VPLG) uses a graph-based model to describe the structure of proteins on the super-secondary structure level. A protein-ligand graph is computed from the atomic coordinates in a PDB file and the secondary structure assignments of the DSSP algorithm. In this graph, vertices represent secondary structure elements (SSEs, usually alpha helices and beta strands) or ligand molecules, while the edges model contacts and relative orientations between them. The graphs can be visualized, written to a database, and saved in a text-based file format.
Updated 09 May 2013
Hypercube
| Pop | 175.12 |
|---|---|
| Vit | 11.70 |
Hypercube is a tool for visualizing DOT (graphviz), GML, GraphML, GXL and simple text-based graph representations as SVG and EPS images. It comes with a Qt-based GUI application and a Qt-independent commandline tool. It uses a simulated annealing algorithm to lay out the graph, which can be easily parameterized to achieve the desired look. The main development goals are portability and easy usage rather than high performance and complexity.
