A method of performing refractive laser eye surgery on a human eye is provided wherein the ablation pattern is centered along the visual axis, rather than along the line of sight. First, a wavefront, either ocular, corneal or a combination thereof, is generated by a wavefront sensor centered along the line of sight. This measured wavefront is centered on and encompasses a patients pupil. Then, an analysis pupil is determined which encompasses the measured pupil. The analysis pupil is centered along the visual axis at the point of intersection with the cornea. Consequently, the measured wavefront is reconstructed over the analysis pupil only using data taken over the area covered by the measured pupil. This reconstruction is done through a least squares fit of a series of slopes from the measured wavefront and/or through the transformation of aberration coefficients. Finally, an ablation pattern, or a lenticule generation pattern, to be performed by a refractive laser centered on the corneal intersect of the visual axis is produced in accordance with the reconstructed wavefront.
