Seth Tomchik @sethtomchik@qoto.org
Neuroscientist / learning and memory, nf1, metabolism
Joined Nov 2022
A spring sunrise over Hickory Hill Park in Iowa City, about 3 miles (4.8 km) away from the University of Iowa. The hill in the foreground is West Prairie, where a controlled burn was recently carried out. Green shoots are just beginning to sprout again, making for a pretty contrast with the fire-charred landscape.
Seth Tomchik
boosted
I spent some time working on making a setup to image muscle activity in walking flies. The leg moves out of the field of the view often, so we set up a light field microscope. It's just like a normal microscope, but with a microlens array filter added so the image comes out with a bunch of tiny lenslets. You can use to reconstruct a full volume from a single image!
We found the light field framework oLaF to work really well in reconstructing the volume (as you can see on the right image). It would take 20 minutes per image though, which would take too long for processing whole videos.
So I've made pyolaf! https://github.com/lambdaloop/pyolaf
It's a port of oLaF from Matlab to Python, with some optimizations to make it use the GPU effectively. With this, it can run at least 20x faster!
Neuroscientist / learning and memory, nf1, metabolism
Joined Nov 2022
