Graph-based segmentation of retinal layers in oct images
- 13 files
- 73 downloads
This script demonstrates how graph theory can be used to segment retinal layers in optical coherence tomography images.
USAGE:
run the script by pressing F5.
I am working on a more comprehensive open source software package for computer-aided segmentation of retinal layers in optical coherence tomography images, which currently includes 1. automated segmentation of 6 reitnal layers and 2. GUI for examination and manual correction of the automated segmentation. It can be downloaded at my github page. http://pangyuteng.github.io/caserel
CITE AS:
Chiu, Stephanie J., et al. "Automatic segmentation of seven retinal layers in SDOCT images congruent with expert manual segmentation." Optics express 18.18 (2010): 19413-19428.
Teng, Pang-yu. (2013). Caserel - An Open Source Software for Computer-aided Segmentation of Retinal Layers in Optical Coherence Tomography Images. Zenodo. 10.5281/zenodo.17893
http://dx.doi.org/10.5281/zenodo.17893
Cite As
pangyuteng (2019). Graph-based segmentation of retinal layers in oct images (https://www.mathworks.com/matlabcentral/fileexchange/43518-graph-based-segmentation-of-retinal-layers-in-oct-images), MATLAB Central File Exchange. Retrieved .
Comments and Ratings (7)
Updates
| 1.1.0.0 | updated summary |
|
| 1.1.0.0 | edit grammer. |
|
| 1.1.0.0 | added citation |
|
| 1.1.0.0 | +minor revision in the description section.
|
MATLAB Release Compatibility
Platform Compatibility
Windows macOS LinuxCategories
Tags
Discover Live Editor
Create scripts with code, output, and formatted text in a single executable document.
Select a Web Site
Choose a web site to get translated content where available and see local events and offers. Based on your location, we recommend that you select: .
Select web siteYou can also select a web site from the following list:
Americas
- América Latina (Español)
- Canada (English)
- United States (English)
Europe
- Belgium (English)
- Denmark (English)
- Deutschland (Deutsch)
- España (Español)
- Finland (English)
- France (Français)
- Ireland (English)
- Italia (Italiano)
- Luxembourg (English)
- Netherlands (English)
- Norway (English)
- Österreich (Deutsch)
- Portugal (English)
- Sweden (English)
- Switzerland
- United Kingdom (English)
VINITA SHUKLA (view profile)
How can we segment the rest of the layers?Like choroid, it's five layer, retina, it's 10 layers and Chorioscleral interface the CSI.
Neha Gour (view profile)
I am applying the code given at http://pangyuteng.github.io/caserel for my own image but finding this error. kindly tell me why.
**Attempt to reference field of non-structure array.
Error in getRetinalLayersCore (line 114)
indPathX = find(rPaths(strcmp('ilm',{rPaths.name})).pathY==k);
Error in getRetinalLayers (line 129)
[retinalLayers, ~] = getRetinalLayersCore(retinalLayerSegmentationOrder{layerInd},imgNew,params,retinalLayers);
Error in getRetinalLayersExample (line 107)
[retinalLayers, params] = getRetinalLayers(img);**
wang wang (view profile)
rong (view profile)
pangyuteng (view profile)
@Bashir Isa Dodo, this code does not support opening of zip files, try unzipping the zip file and using the files within the zip file.
Bashir Isa Dodo (view profile)
Hello, I tried running the code, by entering the folder path of the images, but I always get this error
>> updatedGTherorySimplified
Error using load
Unable to read file 'D:\Matlab TrialsCMF_v1.0.zip'. No such file or directory.
Error in updatedGTherorySimplified (line 35)
load([folderPath imageDir(1).name]);
and I am sure the images are in the directory, I tried copying the images to separate directory, and still no change
Hope to get a feedback thanks
KalviKumar J (view profile)