Up: Component summary
Up: Component summary
Component
NucleusGeneratorGenerates DAPI-like grayscale images with random cell nuclei. A list of coordinates is saved for validation purposes. The source of DAPI signal is hand picked cell nuclei from cultured prostate tissue images, acquired with a Zeiss Axioplan2 widefield microscope with a 40x objective.
| Version | 1.0 |
|---|---|
| Bundle | anima |
| Categories | Image Generation |
| Authors | Ville Rantanen (ville.rantanen@helsinki.fi) |
| Issue tracker | View/Report issues |
| Requires | Matlab |
| Source files | component.xml dapigenerate.m cellimages execute.m |
| Usage | Example with default values |
Outputs| Name | Type | Description |
|---|---|---|
| out | ImageList | A directory with image files. |
| centers | CSV | A CSV file with coordinates of the generated nuclei. |
Parameters| Name | Type | Default | Description |
|---|---|---|---|
| height | int | 600 | Height of the images in pixels. |
| maxCells | int | 70 | Maximum number of cells in the image. If cells do not fit in the image, number may decrease. |
| minDist | int | 30 | Minimum distance for object centers. use over 40 to ensure no overlaps, use smaller numbers for tougher set for segmentation. |
| number | int | 10 | Number of images to generate. |
| test | boolean | false | Set true to return a predefined image (no randomization). |
| width | int | 800 | Width of the images in pixels. |
Test cases| Test case | Parameters▼ | OUT out |
OUT centers |
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|---|---|---|---|---|---|---|
| case1 | properties | out | centers | |||
|
test=true, |
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