I am trying to adapt worm tools for a slightly diffrent, much less challenging application than for worms.
I wondered if anybody had suggestions about how I might best do this.
I would like to further an automated pathway to measure Drosophila pupae (it not necessary that all pupae are identified and if a proportion are skipped it is fine).
The images are of Drosophila puape attached to a transparent piece of plastic . All pupae are always in the same plane and never overlap, orientation is random they have a very standard shape (3-4 mm long). The pupae look like they have two axis of symmetry, but there are some small unimportant differences at the ends.
While the identify primary objects works very very well for identifying isolated puape, it does not work so well when the pupae are very close to each other. It is a behavioral property of Drosophila pupation that some fraction like to align themselves and the arrows highlight where this has a happened.
image.pdf (143 KB)
Given that identification of non-overlapping puape looks to be a much simpler problem than the one solved for worms I was wondering if anybody thought the ‘UntangleWorms’ model could be used delineate individual pupae in clusters. I had a very quick go at making a training set file on default settings. But it does not do a good job in my largely ignorant hands.
Any help would be greatly appreciated.
I have attached a zip file with the pipeline image and training set.
Guy.zip (89.1 KB)