Tutorials
Introductory video
7-click analysis
revision: 0.1 date: 6/13/2022
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The quickest path to interactive gating with one of the available image volumes. This sketch walks through just 7 clicks to load, segment and generate scatter-plots of cell features that can be gated and visualized in the original image volumes. |
| Level | Introductory |
| Functionality | Loading, Segmentation, Visualization |
| Time | <5 min |
| Image | Kidney_Cortex_Human.tif
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Refining image processing
revision: 0.1 date: 6/14/2022
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This sketch demonstrates the use and application of image processing built into VTEA. The VTEA uses existing approached in ImageJ/FIJI and other ImageJ plugins. |
| Level | Introductory |
| Functionality | Loading, Image Processing, Segmentation |
| Time | <5 min |
| Image | Kidney_Cortex_Human.tif
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Testing segmentation
Drafting release…
revision: Coming soon. date: TBD
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This sketch demonstrates how to preview the effect of parameter selection and image pre-processing on segmentation. |
| Level | Introductory |
| Functionality | Loading, Image Processing, Segmentation |
| Time | <5 min |
| Image | Kidney_Cortex_Human.tif
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Importing segmentation
Drafting release…
revision: Coming soon. date: TBD
| Place image here |
This sketch shows how to import a segmentation performed outside of VTEA, such as Cellpose, etc. |
| Level | Introductory |
| Functionality | Loading, Image Processing, Segmentation |
| Time | <5 min |
| Image | Kidney_Cortex_Human.tif
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Supervised gating, visualization and labeling
Drafting new release…
revision: 0.1 date: 4/30/2022
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This sketch introduces flow cytometry-like gating and subgating and image regions-of-interest gating and visualization on the original image volume followed by manual cell instance labeling with these gates. |
| Level | Introductory |
| Functionality | Loading Datasets, Gating, Visualization, Classification |
| Time | <5 min |
| Image | Kidney_Cortex_Human.tif
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Unsupervised classification and visualization
Planned release…
revision: TBD date: TBD
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| Level | Introductory |
| Functionality | XXXXXXXXXX |
| Time | <X min |
| Image | XXXXXXXXXX.tif |
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Neighborhood generation and analysis
Planned release…
revision: TBD date: TBD
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| Level | Introductory |
| Functionality | XXXXXXXXXX |
| Time | <X min |
| Image | XXXXXXXXXX.tif |
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Sharing results and outputs
Planned release…
revision: TBD date: TBD
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Fill this text in. |
| Level | Introductory |
| Functionality | XXXXXXXXXX |
| Time | <X min |
| Image | XXXXXXXXXX.tif |
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