She clearly has her own issues to deal with. It sounds to me like her perception of men has been distorted due to some pretty traumatic stuff. I feel sorry for her.
I say tell her frankly and without "passing judgement" how that comment made you feel, and that if she wants to have any form of relationship with you, friend or otherwise, then there's got to be some degree of trust.

But until she internalizes that, just let her be.