The most commonly used two-qubit gate is the controlled-not (CNOT) gate. In two-qubit space, CNOT is a matrix of the form . In general it is a matrix. The most important three-qubit gate is the universal Toffoli gate, or controlled-controlled-not (CCNOT) gate with two control bits. For the Toffoli gate, both control bits are operative; for CNOT, only the first control bit.

The program generates the basic elements that make up a quantum computation. Especially instructive is a method for constructing operators (gates) acting within multi-qubit states.