[Insight-users] Performing manual segmentation of cell images

[Kevin Keraudren]

Hi,

I would like to manually segment a few cell images in order to evaluate 
an automated segmentation (for instance trace the cell boundaries and 
the contour of the nuclei).

I usually do manual segmentations with ITK-snap on medical images, not 
microscopy images, but I think it is overkill for PNG/TIFF images, and 
not appropriate to handle classes: I would like to have the cytoplasm 
and the nuclei classes, and assign labels of the form cytoplasm-1, 
cytoplasm-2, cytoplasm-3,... and nuclei-1, nuclei-2, nuclei-3.
For my application, I would have more classes than just cytoplasm and 
nuclei.

Would you know of a more appropriate program for this kind of manual 
segmentation? In my mind it would be a tool that allow you to segment 
the image with layers, as the layers of Photoshop or GIMP, and each 
layer would correspond to a class.

Thanks a lot for your help,

Kind regards,

Kevin