trace_prune
This command takes an existing skeleton and modifes its connectivity so that only bones atoms with branch points (i.e. with at least 3 bonds) can be seen. This means that if the connection between two branch point bones consisted of a number of short bonds, they are replaced by just one bond between the two atoms. The pruning action greatly simplifies the skeleton and often allows the user to recognise structural features. If the density lacks branching features, the pruned skeleton will have very long connections, and some long connections in the original skeleton may be missing.
The command is intended as a step towards building a skeleton which ends up closely resembling a CA trace.