A method for generating a three-dimensional virtual representation includes performing a first scan of the physical object while the physical object has a first position. A displayed visualization of the physical object is generated based on the first scan. Aligning input is received that causes increased correspondence between the displayed visualization and a second position of the physical object. A second scan of the physical object is performed while the object is in the second position. Based on the first scan and the second scan, a three-dimensional virtual representation of the physical object is generated.