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This paper classifies surfaces $S$ of general type with $p_g=q=1$ having an involution $i$ such that $S/i$ has non-negative Kodaira dimension and that the bicanonical map of $S$ factors through the double cover induced by $i.$ It is shown that $S/i$ is regular and either: a) the Albanese fibration of $S$ is of genus 2 or b) $S$ has no genus 2 fibration and $S/i$ is birational to a $K3$ surface. For case a) a list of possibilities and examples are given. An example for case b) with $K^2=6$ is also constructed.