The Computational And Physical Systems (CAPS) group at the University of Idaho uses computational methods in the study of biological and physical processes.
News
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19 June 2021
The CAPS lab has disbanded. It was a great time, and there was a lot of productive research. The resulting publications are better tracked on Kyle’s website. Some highlights are:
- The SNT paper in Nature Methods on quantifying neuroanatomy, where we introduced image-based modeling for multiscale agent-based neuroscience simulations.
- The Bionic Tracking paper, where we used eye tracking in VR to track cells in growing embryos in 3D over developmental time.
- The development of sciview and publication of a corresponding development paper.
- A Nature Cell Biology paper on segmenting stem cells in the regenerating mouse incisor with Ophir Klein’s group.
- The publication of the scenery framework and paper for 3D visualization and VR in Kotlin.
- Stephan Daetwyler’s paper on imaging vascular development in 3D with lightsheet microscopy.
- An evolutionary game theory paper on the escalation of strategic memory length in the Prisoner’s Dilemma.
- Multiple works on artificial gene-regulatory networks with Sylvain Cussat-Blanc: a review, differentiable GRNs, neuromodulated learning in deep neural nets.
- The full fun.imagej framework and paper
- Louise Magbunduku’s work on eco-evolutionary swarms
- The final paper from the group was on the Physarum polycephalum experiments with microbial ecosystems available as a preprint here.
Kyle Harrington relocated to the Max Delbrueck Center in Berlin, Germany, and you can continue to track him on his website.
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15 March 2019
Leo Epstein presented his latest results on modeling P. polycephalum at the Image-Based Modeling and Simulation of Morphogenesis workshop.
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19 October 2018
Louise Magbunduku taking Marine Biological Laboratory by swarm and demoing her current work.
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06 June 2018
We’re happy to welcome Nathan Hurlocker, Jessica Smith, and Conrad Mearns to CAPS!
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08 March 2018
Aniruddha Belsare is teaming up with CAPS and Nate Schiele on a collaborative biological modeling project. More details to come!
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23 October 2017
“FunImageJ: a Lisp framework for scientific image processing” by Harrington, K., C. Rueden and K. Eliceiri has been accepted for publication in Bioinformatics.
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08 August 2017
“Dynamic Habitat Construction Through Evolving 3D Swarms” by L Magbunduku and K Harrington has been accepted to the Living Architectures workshop at the European Conference on Artificial Life.
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19 May 2017
“Competitive Dynamics in Eco-evolutionary Genetically-Regulated Swarms” by K Harrington and L Magbunduku has been accepted at the European Conference on Artificial Life.