The molecular graphics images you see on my home page were produced by using my molecular graphics program MolPOV, which provides an easy-to-use interface between molecular structure files in the “Brookhaven PDB” format and the Persistence of Vision Ray Tracer (POV-Ray). The program works in most versions of Windows. The MolPOV download page has lots of sample images.
MCC (Mass Combination Calculator)
In our research on the mass spectrometry of metal complexes, we often need to identify peaks that have various charges and molecular compositions. When electrospray sources are used, one can generate a number of ions that have different combinations of metal, solvent, and ligands. I wrote Mass Combination Calculator (MCC) to find all of the permutations of these components that can give an observed mass/charge value. This program runs in Windows.