In Linear Algebra, abstract vector spaces, we define an inner product that generalizes the dot product of Euclidean spaces. Two vectors are said to be "orthogonal" if and only if their inner product is 0, just as two vectors in R3 are perpendicular if and only if their dot product is 0.
You can show that something like [itex]\int_a^b f(x)\overline{g(x)}dx[/itex] is an "inner product". That is the kind of inner product used when you are talking about "wave functions".
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lms_89
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Ok.. that helps a bit. Thanks for the explanation :)