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The chain_complex method already produces sparse matrices:

sage: Y = simplicial_complexes.NotIConnectedGraphs(6,2)
sage: Y.f_vector()
[1, 15, 105, 455, 1365, 3003, 4945, 5715, 3990, 1470, 306, 30]
sage: C = Y.chain_complex()
sage: C.differential(4)
1365 x 3003 sparse matrix over Integer Ring

How big is your simplicial complex? What is its f-vector?