smothing crooked boundary of cell images

Hi

I am trying to segment images of some cells. The I have almost done it completely, but in my final image the boundaries of the cells are not smooth because of some blob of pixels connected to the boundary. I was not able to get rid of these blobs at an earlier stage without effecting the detection of the boundary of the cells as well.

Is there any way I can smooth out the boundaries? I have an idea about how it can be done, but dont know how to implement it. What I had in mind is to use the elliptical shape of the cells as a reference and remove the unwanted pixels. Also, some of the cells are split into two by a septum. Therefore, each elliptical cell is split into two halves of an ellipse.

Answer 1

[Image Analyst]

You can pass those boundaries into poly2mask and crate a binary image. Then pass that into activecontour to get smoothed boundaries. See attached demo. Or you could try a different filter such as a LOG or DOG filter.