Tracking Bugs

An algorithm for keeping track of overlapping critters

Shaevitz is using his team’s tracking algorithm to follow the movements of Myxococcus Xanthus, a bacterium that glides like a long flexible worm and coordinates movements among large structured groups. Here, the trajectories of 205 Myxococcus Xanthus cells over 2000 seconds are indicated in different colors, overlaid on the first frame of the movie. Using the data collected, Shaevitz and his team calculated each bacterium’s gliding speed. Reprinted from Deng Y, Coen P, Sun M, Shaevitz JW (2013) Efficient Multiple Object Tracking Using Mutually Repulsive Active Membranes. PLoS ONE 8(6): e65769. doi:10.1371/journal.pone.0065769.To better study the interactions and movements of whales and birds in the wild, researchers tag them with GPS tracking devices. But tracking critters in more crowded environments, such as a Petri dish, can be challenging—especially if, like fruitflies, they zig and zag in overlapping movements; or, like bacteria, they wriggle and glide while in contact with one another.

 

“If you have multiple objects far from each other, it’s easy.  But when they get closer, the tracker gets confused,” says Joshua Shaevitz, PhD, associate professor of physics at Princeton University and the Lewis-Sigler Institute for Integrative Genomics.

 
To remedy that problem, Shaevitz and his colleagues built on an approach called an active contours or “snake” algorithm, which treats the bright parts of an image as a kind of energy that needs to be maximized. “You put wiggly lines around and they try to dock where the energy is,” Shaevitz says. But, typically, the snakes are allowed to merge, break, fork, and recombine.

 

In Shaevitz’ team’s innovation, the algorithm knows how many objects are present and assumes not only that they don’t disappear or get generated, but also that they repel each other—preventing them from collapsing into one another if they overlap.

 

The algorithm can track any objects that get close to each other, and is already widely used for tracking Drosophila melanogaster, the fruitfly commonly used for research.



All submitted comments are reviewed, so it may be a few days before your comment appears on the site.

Post new comment

The content of this field is kept private and will not be shown publicly.
CAPTCHA
This question is for testing whether you are a human visitor and to prevent automated spam submissions.
Image CAPTCHA
Enter the characters shown in the image.