OCTSEG (Optical Coherence Tomography Segmentation and Evaluation GUI)

OCTSEG is a GUI and function collection to segment and visualize retinal layers on OCT data.

OCTSEG (Optical Coherence Tomography Segmentation and Evaluation GUI) is a graphical user interface (GUI) written in MATLAB for research purpose. The retinal layers and the blood vessels of retinal OCT scans can be segmented. Tools for the manual correction of the automated segmentations are provided. The segmentations or resulting thickness measurements on the retinal layers may be exported as a CSV file, which is readable by many standard software programms (e.g. Excel).
Current Features:
- Heidelberg Engineering Spectralis OCT RAW data (.vol ending): Circular scans and Optic Nerve Head centered volumes are supported
- Image file (.tif, .pgm, .jpg) support. Multiple images can be read in as volumes using user generated .list files (a text file format). Note: The algorithms have never been tested on other data then from the Spectralis system. Parameter adaption will for sure be necessary.
- Automated segmentation of 6 prominent retinal layers (including the inner limiting membrane, outer nerve fiber layer boundary, and retinal pigment epithelium)
- Automated segmentation of the blood vessel positions on circular scans
- Batch processing of circular scans
- Manual correction of possible segmentation errors
- Visualization of the data and the segmentation results, including enface views and thickness maps
Export of the segmentation results to CSV text files