The independence complex $\mathrm{Ind}(G)$ of a graph $G$ is the simplicial complex formed by its independent sets. This article introduces a deformation of the simplicial boundary map of $\mathrm{Ind}(G)$ that gives rise to a double complex with trivial homology. Filtering this double complex in the right direction induces a spectral sequence that converges to zero and contains on its first page the homology of the independence complexes of $G$ and various subgraphs of $G$, obtained by removing independent sets and their neighborhoods from $G$. It is shown that this spectral sequence may be used to study the homology of $\mathrm{Ind}(G)$. Furthermore, a careful investigation of the sequence's first page exhibits a relation between the cardinality of maximal independent sets in $G$ and the vanishing of certain homology groups of the independence complexes of some subgraphs of $G$. This relation is shown to hold for all paths and cyclic graphs.