Difference between revisions of "2017 Winter Project Week/HyperspectralOpht"
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This project aims to offer a tool which makes use of 3D/4D ophthalmology data in different modalities to extract information which can compensate each other for richer analysis. | This project aims to offer a tool which makes use of 3D/4D ophthalmology data in different modalities to extract information which can compensate each other for richer analysis. | ||
| − | 3D high resolution data (SIM) displays individual cells with sharp boundaries which are hard to be localized in 4D hyperspectral data (LSM) because of low resolution. | + | 3D high resolution data (high resolution structured illumination microscopy, SIM) displays individual cells with sharp boundaries which are hard to be localized in 4D hyperspectral data (confocal multispectral laser scanning microscopy, LSM) because of low resolution. |
The tool that we want to provide to users should offer image processing modules, such as, co-registration between SIM and LSM data, segmentation on SIM and mapping the segmentation label from SIM to LSM to analyze spectral information of each cell. | The tool that we want to provide to users should offer image processing modules, such as, co-registration between SIM and LSM data, segmentation on SIM and mapping the segmentation label from SIM to LSM to analyze spectral information of each cell. | ||
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<!-- Objective bullet points --> | <!-- Objective bullet points --> | ||
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3D/4D Ophthalmology Image Anaylsis Framework | 3D/4D Ophthalmology Image Anaylsis Framework | ||
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* Plot of spectra of selected cells or a region-of-interest | * Plot of spectra of selected cells or a region-of-interest | ||
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<!-- Approach and Plan bullet points --> | <!-- Approach and Plan bullet points --> | ||
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| + | * Review existing modules in 3D Slicer | ||
| + | ** Review existing modules for 4D data viewer, such as, multi-volume viewer extension | ||
| + | ** Try existing segmentation modules in Slicer to see if they can work on SIM data | ||
| + | ** Review existing modules for cell statistics after segmentation | ||
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| + | * Implementation/Integration | ||
| + | ** Implement/integrate 4D hyperspectral data viewer to show image and spectral information. | ||
| + | ** Integrate registration functionality for co-registration between 3D hi-res data and 4D hyperspectral data at image level | ||
| + | ** Integrate user-initialized level set segmentation for cell segmentation or EM segmentation module | ||
| + | ** | ||
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<!-- Progress and Next steps bullet points (fill out at the end of project week --> | <!-- Progress and Next steps bullet points (fill out at the end of project week --> | ||
Revision as of 05:35, 3 January 2017
Home < 2017 Winter Project Week < HyperspectralOpht
Key Investigators
- Sungmin Hong (NYU)
- Guido Gerig (NYU)
Project Description
This project aims to offer a tool which makes use of 3D/4D ophthalmology data in different modalities to extract information which can compensate each other for richer analysis. 3D high resolution data (high resolution structured illumination microscopy, SIM) displays individual cells with sharp boundaries which are hard to be localized in 4D hyperspectral data (confocal multispectral laser scanning microscopy, LSM) because of low resolution. The tool that we want to provide to users should offer image processing modules, such as, co-registration between SIM and LSM data, segmentation on SIM and mapping the segmentation label from SIM to LSM to analyze spectral information of each cell.
| Objective | Approach and Plan | Progress and Next Steps |
|---|---|---|
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3D/4D Ophthalmology Image Anaylsis Framework
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