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Rosette Detector
Download
- This package includes the rosette detector, used in paper Shroom3 is required downstream of FGF signaling for
proneuromasts assembly in the zebrafish lateral line primordium.
- Matlab Demo (with test data) and example output:
- A gentle introduction (for the ones not familiar with image analysis and detection tasks):
How to use
- The package is developed in Matlab R2010a and tested on Ubuntu 10.04 X86_64.
It may require some tiny modifications for a different environment.
- The package is build on some other free software:
VLFeat v0.9.14 | export_fig Matlab tool
Please install the VLfeat toolbox before using the demo!
- Run demo.m in Matlab
- The program uses the detector model trained on our data. (Input images should have a pixel size equal to 0.26 micrometer in real world.)
For generalizing to new data with very different treatment, imaging condition or even different interested objects, it needs a retraining on the new (labelled) data.
If you are interestd in the Matlab program for training the detector, please contact us.
Example results
(raw image | detected rosettes with probability | detection score map)
![](./images_r/20120704_v1_not_red_MO_e18EDF_det.jpg)
![](./images_r/20120704_v1_not_red_MO_e2EDF_det.jpg)
![](./images_r/20120704_v1_not_red_ctrl_e1EDF_red_det.jpg)
![](./images_r/20120704_v1_not_red_ctrl_e2EDF_det.jpg)
![](./images_r/20120704_v1_red_ctrl_e1EDF_not_red_det.jpg)
![](./images_r/20120704_v1_red_ctrl_e9EDF_det.jpg)
![](./images_r/20120704_v1_not_red_MO_e18EDF.jpg)
![](./images_r/20120704_v1_not_red_MO_e18EDF_bb.png)
![](./images_r/20120704_v1_not_red_MO_e18EDF_det.jpg)
![](./images_r/20120704_v1_not_red_MO_e2EDF.jpg)
![](./images_r/20120704_v1_not_red_MO_e2EDF_bb.png)
![](./images_r/20120704_v1_not_red_MO_e2EDF_det.jpg)
![](./images_r/20120704_v1_not_red_ctrl_e1EDF_red.jpg)
![](./images_r/20120704_v1_not_red_ctrl_e1EDF_red_bb.png)
![](./images_r/20120704_v1_not_red_ctrl_e1EDF_red_det.jpg)
![](./images_r/20120704_v1_not_red_ctrl_e2EDF.jpg)
![](./images_r/20120704_v1_not_red_ctrl_e2EDF_bb.png)
![](./images_r/20120704_v1_not_red_ctrl_e2EDF_det.jpg)
![](./images_r/20120704_v1_red_ctrl_e1EDF_not_red.jpg)
![](./images_r/20120704_v1_red_ctrl_e1EDF_not_red_bb.png)
![](./images_r/20120704_v1_red_ctrl_e1EDF_not_red_det.jpg)
![](./images_r/20120704_v1_red_ctrl_e9EDF.jpg)
![](./images_r/20120704_v1_red_ctrl_e9EDF_bb.png)
![](./images_r/20120704_v1_red_ctrl_e9EDF_det.jpg)