Here is a glossary of libRosetta terms for things that may not be obvious.
| Abstract class |
Base class that can't itself be instantiated into objects |
| Backbone |
Backbone of a polymer (excluding sidechains) |
| BackboneUnit |
Backbone part of a residue (exclude sidechain) |
| Compound Atom |
Atom properties tied to its bonded/compound type (CNH2, ...) |
| Conformation |
The molecular topology and geometry/positions |
| Element Atom |
Atom properties tied to its element type (H, C, ...) |
| Interface class |
Lightweight abstract base class with no data or function bodies |
| Key |
A named type code/index for lookup of specific objects in a larger component: libRosetta keys are like more powerful enumerators |
| Option |
Program option specified on the command line or an options file |
| Quad |
TorsionAngle and Tetrad structures of 4 Atoms (or Dots) |
| Sidechain |
Sidechain of a residue (excluding backbone): For a protein this includes C-beta and atoms farther out the sidechain and everything that touches them |
| Tetrad |
Tetrahedral structure of 4 atoms used for positioning Hydrogens and other "branch" Atoms |
