In quantum mechanics, the Schrieffer–Wolff (SW) transformation (also called quasi-degenerate perturbation theory) is known as an approximative method to reduce the dimension of the Hamiltonian. We present a geometric interpretation of the SW transformation: We prove that it induces a local coordinate chart in the space of Hermitian matrices near a k-fold degeneracy submanifold. Inspired by this result, we establish a ‘distance theorem’: we show that the standard deviation of k neighboring eigenvalues of a Hamiltonian equals the distance of this Hamiltonian from the corresponding k-fold degeneracy submanifold, divided by √k. Furthermore, we investigate one-parameter perturbations of a degenerate Hamiltonian, and prove that the standard deviation and the pairwise differences of the eigenvalues lead to the same order of splitting of the energy eigenvalues, which in turn is the same as the order of distancing from the degeneracy submanifold. As applications, we prove the ‘protection’ of Weyl points using the transversality theorem, and infer geometrical properties of certain degeneracy submanifolds based on results from quantum error correction and topological order.