1. A method of analyzing an abnormality in the retinal layers of the eye, said method comprising: collecting three dimensional optical coherence tomography (OCT) intensity data of the retinal layers of the eye including the abnormality; segmenting the OCT intensity data to identify the boundaries of the abnormality; determining a representative value based on the intensity or shape of the identified abnormality, detect the presence of blood flow within or near the abnormality based on OCT data; identify the presence of abnormal vasculature within or near the abnormality based on the detected blood flow; classifying the abnormality based on the first representative value and any identified abnormal vasculature using predetermined criteria; and displaying or storing the classification.