Need Matlab based cell segmentation for Ring shaped cells (Donuts)
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I would greatly appreciate any suggestions for matlab or other software which can do
cell segmentation for Ring shaped cells (Donuts), like the image below:
Matlab's watershed command works on some images, but misses out 50% of the cells in above image.
Any suggestions much appreciated!
4 个评论
Star Strider
2021-1-31
Simply out of curiosity, are they normal erythrocytes or ring sideroblasts or something else?
Akhila Raman
2021-1-31
Star Strider
2021-1-31
Definitely not something presented to us in histology or histopathology!
An enlarged version with specific staining characteristics would be helpful.
Akhila Raman
2021-1-31
采纳的回答
KALYAN ACHARJYA
2021-1-31
"Red channel contains the donut cells to be segmented."
Have you tried with other color Models, like as HSV or more.
rgbImage=imread('cell_image.png');
temp=rgbImage;
colImage=rgb2hsv(rgbImage);
mask=colImage(:,:,3)>0.45;
mask=cat(3,mask,mask,mask);
temp(~mask)=0;
imshow([rgbImage,temp]);
3 个评论
KALYAN ACHARJYA
2021-1-31
Akhila Comment's moved here
Thanks! I need to count the donut nuclei in Red channel. Any suggestions?
KALYAN ACHARJYA
2021-1-31
You can try with morphological operations to separate all the connected cells, and later the disassocited cells count. However it is a bit challenging for such input images. But it is absolutely possible. Please Focus on better cell segmentation and differentiating them from each other. Counting disjoint cell blobs is an easy task.
Akhila Raman
2021-1-31
更多回答（1 个）
Image Analyst
2021-1-31
1 个投票
Use the Color Thresholder app on the Apps tab of the tool ribbon. I'd probably use HSV color space. Export the result as a function. That should find all the red blobs. If you only want blobs that have a hole inside a completely closed perimeter, like you want O-shaped blobs and not C-shaped blobs, then call regionprops() and look for the Euler number.
Write back if you still need help.
5 个评论
Akhila Raman
2021-1-31
Image Analyst
2021-1-31
编辑：Image Analyst
2021-1-31
Again, is any red blob of any shape acceptable, or only those with a hole in them? Because I imagine that you're going to have a lot of red blobs that have no holes in them especially since they're so small. In fact I imagine most of them would not have a hole in them.
Akhila Raman
2021-1-31
Image Analyst
2021-2-1
I think you need higher resolution and need to do a background subtraction. The attached is the best I could do in a few minutes and you can see it's not very good.
Akhila Raman
2021-2-1
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