I am asking now about the methods which are used in general, not any particular experiment performed by me (so far). To specify the problem: you have to plane waves, tilted against each other. They create interference pattern (screen, camera, film etc.) such as cos^2(K x/2). Then, one of the beams is phase modulated after going through transparent non uniform object (like a mircrolens array). You interfere it with the reference beem and now the interference pattern is distorted.
How to retrieve a phase profile if the phase modulation is bigger then 2 pi? Which assumptions are typically made, what are the restrictions and which specific alghorithms are used?
There are plenty of unwrapping algorithms. I use most of times the Flynn one (google "flynn unwrap" and you will find plenty of information along with code).
Unwrapping without additional constraints is an ill-posed problem (there are phase distributions that cannot be unwrapped by definition). Generally the algorithms are based on minimizing the jumps in phase. Nevertheless what minimization means depends on the problem.