3DScape Installation Guide
To use 3DScape , you need to install Cytoscape first. Besides, 3DScape requires VTK libraries to run.
The VTK shared libraries can be obtained here (32-bit Windows, 64-bit Windows).
You can also compile VTK from source code by following this instruction. The vtkCys libraries are updated along with 3DScape, and can be downloaded here(32-bit Windows, 64-bit Windows). Since those libraries need Microsoft Visual C++ libraries to run, you also need to download and install Microsoft Visual C++ 2008 Redistributable Package (x86, x64).
After download, extract all DLL files in vtk and vtkCys packages to your system path, e.g. C:\Windows\System32 if Windows has been installed on C:\. Please do not put to anywhere else, since some VTK DLLs need system DLLs to be in the same folder as they are. Put vtkCysPlugin.jar into cytoscape/plugins/ folder, the 3DScape will be automatically loaded upon the startup of Cytoscape.
See also 3DScape Online User Manual