Ocular dynamics is a very complex phenomenon which has not been well studied and understood yet. The way in which the eye responds to pulsatile changes of the blood pressure or even the electric activity of the heart depends not only on the mechanical properties of each individual structure of the eye globe, but also on its internal conditions, such as the degree of accommodation or intraocular pressure (IOP).This paper presents a method for correcting these undesired movements that could increase the sensitivity of the technique and its reliability in the estimation of pulsatile dynamics. The presented algorithm uses fully automatic detection of the structures that form an angle and fully automatic stabilisation of each individual image being a part of a captured sequence.The procedures described above were applied to the data of nine subjects taking part in the study. For all of them it turned out that the most representative area for fitting the images is the area of the irido-corneal angle apex. The presented algorithm significantly improved the spatial stability of the images in the temporal sequences of the tomographic images. The use of such correction makes it possible to distinguish the subtle pulsatile fluctuations of the ocular structures in the anterior segment, that can be associated with the activity of the retinal blood vessels and/or electric activity of the heart, from the undesired involuntary movements of the eye or the whole head.