We provide a general thermodynamic framework for the understanding of guest-induced structural transitions in hybrid organic-inorganic materials. The method is based on the analysis of experimental adsorption isotherms. It allows the determination of the free energy differences between host structures involved in guest-induced transitions, especially hard to obtain experimentally. We discuss the general case of adsorption in flexible materials and show how a few key quantities, such as pore volumes and adsorption affinities, entirely determine the phenomenology of adsorption, including the occurrence of structural transitions. On the basis of adsorption thermodynamics, we then propose a taxonomy of guest-induced structural phase transitions and the corresponding isotherms. In particular, we derive generic conditions for observing a double structural transition upon adsorption, often resulting in a two-step isotherm. Finally, we show the wide applicability and the robustness of the model through three case studies of topical hybrid organic-inorganic frameworks: the hysteretic hydrogen adsorption in Co(1,4-benzenedipyrazolate), the guest-dependent gate-opening in Cu(4,4'-bipyridine)(2,5-dihydroxybenzoate)2 and the CO2-induced "breathing" of hybrid material MIL-53.