### - c -

- chains() : Topology
- close() : DesmondDMSFile
- CollisionFrequency() : AndersenThermostat
- computeVirtualSites() : Context
- condense() : CharmmParameterSet
- convertWater() : Modeller
- Copy() : Discrete3DFunction , Continuous3DFunction , Continuous1DFunction , Continuous2DFunction , Discrete2DFunction , Discrete1DFunction , TabulatedFunction
- createCheckpoint() : Context
- createDisulfideBonds() : Topology
- createExceptionsFromBonds() : NonbondedForce
- createExclusionsFromBonds() : CustomNonbondedForce , CustomManyParticleForce
- createStandardBonds() : Topology
- createSystem() : ForceField , GromacsTopFile , DesmondDMSFile , CharmmPsfFile , AmberPrmtopFile