While the formalism is independent of the choice of basis, the effectiveness of a calculation will certainly be basis dependent.
Furthermore there are common conventions useful to know.
First, the single-particle basis has angular momentum as a good quantum number. You can imagine the single-particle wavefunctions being generated by a one-body Hamiltonian, for example a harmonic oscillator. Modifications include harmonic oscillator plus spin-orbit splitting, or self-consistent mean-field potentials, or the Woods-Saxon potential which mocks up the self-consistent mean-field. For nuclei, the harmonic oscillator, modified by spin-orbit splitting, provides a useful language for describing single-particle states.