Motivated by recent experiments and theoretical investigations on binary mixtures, we investigate the miscible-immiscible transition at finite temperature by means of Quantum Monte Carlo. Based on the observation that the segregated phase is strongly affected by temperature, we propose to use the degree of demixing for thermometry of a binary bosonic mixture trapped in an optical lattice. We show that the proposed method is especially sensitive at low temperatures, of the order of the tunnelling amplitude, and therefore is particularly suitable in the regime where quantum magnetism is expected.