An embodiment disclosed relates to a variable threshold method of accurately determining a critical dimension (CD) of an integrated circuit feature. This method can include applying a scanning electron microscope (SEM) to an aperture in a layer of material in a portion of an integrated circuit, obtaining a first measurement of a critical dimension of the aperture, applying the SEM again to the aperture, obtaining a second measurement of the critical dimension of the aperture; and determining a depth of focus margin using the first measurement and the second measurement.