segPLEX

版本 1.0.3.0 (828.0 KB) 作者: C. M. Belanger Nzakimuena
PLEX Elite 9000 retinal B-scan segmentation and ETDRS grid
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更新时间 2023/10/31
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All previously preprocessed folders containing all files (e.g. ‘SamplePatient_01’, ‘SamplePatient_02’, etc.) should be inserted into a 'preprocessed' folder, which should be located inside the current directory (sample input dataset: https://www.kaggle.com/cnzakimuena/retinal-oct-and-octa-data-4).
The segmentation of PLEX Elite 9000 retinal B-scan (size 3mm x 3mm) retinal-vitreous interface (RVI), top and bottom retinal pigment epithelium (RPE), and Bruch’s membrane (BM) is provided. Two image segmentation algorithms are featured. The first consists of a cross-sectional pre-segmentation using A-scan gradients and an implementation of Dijkstra's shortest path algorithm [1]. The second approach is a refinement of the pre-segmentation and involves a graph-cuts algorithm [2]. The segmentation algorithms were previously described and implemented on OCT images generated using a different device [3].
An algorithm for structuring data into an Early Treatment Diabetic Retinopathy Study (ETDRS) grid [4] is also provided.
[1] G. Gallo and S. Pallottino, "Shortest path algorithms," Annals of operations research, vol. 13, no. 1, pp. 1-79, 1988.
[2] K. Li, X. Wu, D. Z. Chen, and M. Sonka, "Optimal surface segmentation in volumetric images-a graph-theoretic approach," IEEE transactions on pattern analysis and machine intelligence, vol. 28, no. 1, pp. 119-134, 2006.
[3] J. Mazzaferri, L. Beaton, G. Hounye, D. N. Sayah, and S. Costantino, "Open-source algorithm for automatic choroid segmentation of OCT volume reconstructions," Scientific reports, vol. 7, p. 42112, 2017.
[4] E. R. Group, "Classification of diabetic retinopathy from fluorescein angiograms," ETDRS report 1991.

引用格式

Bélanger Nzakimuena, C. (2020). Automated Analysis of Retinal and Choroidal OCT and OCTA Images in AMD (Masters thesis, Polytechnique Montréal). Retrieved from https://publications.polymtl.ca/5234/ Bélanger Nzakimuena, C., Marcotte-Collard, R., & Simard, P. (2020). An algorithm for structuring data into an Early Treatment Diabetic Retinopathy Study (ETDRS) grid (https://github.com/cnzakimuena/segPLEX), GitHub.[Month and Day Retrieved], [Year Retrieved].

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subFunctions

subFunctions/ETDRSgrids_functions

subFunctions/ETDRSgrids_functions/rotateAround/rotateAround

subFunctions/imshow3DPierre

subFunctions/preSeg_functions

subFunctions/refSeg_functions

subFunctions/refSeg_functions/graphCutMex_BoykovKolmogorov-master

版本 已发布 发行说明
1.0.3.0

See release notes for this release on GitHub: https://github.com/cnzakimuena/segPLEX/releases/tag/v1.0.3
1.0.2.0

See release notes for this release on GitHub: https://github.com/cnzakimuena/segPLEX/releases/tag/v1.0.2
1.0.1

See release notes for this release on GitHub: https://github.com/cnzakimuena/segPLEX/releases/tag/v1.0.1
1.0.0

要查看或报告此来自 GitHub 的附加功能中的问题，请访问其 GitHub 仓库。
要查看或报告此来自 GitHub 的附加功能中的问题，请访问其 GitHub 仓库。