Quoting again from David Bentley Hart’s The Experience of God. Hart spends a good while comparing what he calls the naturalistic vs. the theistic pictures of the world, so that he can eventually get on with describing the theistic, as in the title of the book.
…we should not let ourselves forget precisely what method is and what it is not. A method, at least in the sciences, is a systematic set of limitations and constraints voluntarily assumed by a researcher in order to concentrate his or her investigations upon a strictly defined aspect of or approach to a clearly delineated object. As such, it allows one to see further and more perspicuously in one particular instance and in one particular way, but only because one has first consented to confine oneself to a narrow portion of the visible spectrum, so to speak. Moreover, while a given method may grant one a glimpse of truths that would remain otherwise obscure, that method is not itself a truth. This is crucial to understand. A method, considered in itself, may even in some ultimate sense be “false” as an explanation of things and yet still be probative as an instrument of investigation; some things are more easily seen through a red filter, but to go through life wearing rose-colored spectacles is not to see things as they truly are.