We introduce an open source software package UniversalQCompiler written in Mathematica that allows the decomposition of arbitrary quantum operations into a sequence of single-qubit rotations (with arbitrary rotation angles) and controlled-NOT (C-not) gates. Together with the existing package QI , this allows quantum information protocols to be analysed and then compiled to quantum circuits. Our decompositions are based on Phys. Rev. A 93, 032318 (2016), and hence, for generic operations, they are near optimal in terms of the number of gates required. UniversalQ-Compiler allows the compilation of any isometry (in particular, it can be used for unitaries and state preparation), quantum channel or positive-operator valued measure (POVM), although the run time becomes prohibitive for large numbers of qubits. The resulting circuits can be displayed graphically within Mathematica or exported to L A T E X. We also provide functionality to translate the circuits to OpenQASM, the quantum assembly language used, for instance, by the IBM Q Experience.