We show that for Sturm-Liouville Systems on the half-line [0, ∞), the Morse index can be expressed in terms of the Maslov index and an additional term associated with the boundary conditions at x = 0. Relations are given both for the case in which the target Lagrangian subspace is associated with the space of L 2 ((0, ∞), C n ) solutions to the Sturm-Liouville System, and the case when the target Lagrangian subspace is associated with the space of solutions satisfying the boundary conditions at x = 0. In the former case, a formula of Hörmander's is used to show that the target space can be replaced with the Dirichlet space, along with additional explicit terms. We illustrate our theory by applying it to an eigenvalue problem that arises when the nonlinear Schrödinger equation on a star graph is linearized about a half-soliton solution.(A2) We assume that P , V , and Q all approach well-defined asymptotic endstates at exponential rate. That is, we assume there exist self-adjoint matrices P + , V + , Q + ∈ C n×n , with P + , Q + positive definite, and constants C and η > 0 so thatand similarly for V (x) and Q(x). In addition, we assume |P ′ (x)| ≤ Ce −η|x| for a.e. x ∈ (0, ∞).(A3) For the boundary conditions, we take α 1 , α 2 ∈ C n×n , and for notational convenience, set α = (α 1 α 2 ). We assume rank α = n, αJα * = 0, which is equivalent to self-adjointness in this case. Here, J denotes the standard symplectic matrix J = 0 −I n I n 0 , with I n denoting the usual n × n identity matrix. We can think of (1.1) in terms of the operatorwith which we associate the domainand the inner productWith this choice of domain and inner product, L is densely defined, closed, and self-adjoint, so σ(L) ⊂ R.Our particular interest lies in counting the number of negative eigenvalues of L (i.e., the Morse index). We proceed by relating the Morse index to the Maslov index, which is described in Section 3. We find that the Morse index can be computed in terms of the Maslov index and an additional term associated with the boundary condition at x = 0.As a starting point, we define what we will mean by a Lagrangian subspace of C 2n . For comments about working in C 2n rather than R 2n , the reader is referred to Remark 1.1 of [10], and the references mentioned in that remark.Definition 1.1. We say ℓ ⊂ C 2n is a Lagrangian subspace of C 2n if ℓ has dimension n and (Ju, v) C 2n = 0, (1.3)for all u, v ∈ ℓ. Here, (·, ·) C 2n denotes the standard inner product on C 2n . In addition, we denote by Λ(n) the collection of all Lagrangian subspaces of C 2n , and we will refer to this as the Lagrangian Grassmannian.