uzh | eth | zürich Winterthurerstr. 190
Institut für Neuroinformatik CH-8057 Zürich, Switzerland
Cortical Computation Group, Matthew Cook
Computer Vision for Connectomics
2 PhD positions available
Background The field of Connectomics (mapping neural circuits) emerged in recent years with the development of high throughput imaging methods for the recording of brain tissue. Electron Microscopy (EM) allows resolving neural circuits at synaptic level and thus has great potential to push forward our understanding of nervous systems.
In the last decade, automatic neuron segmentation has became an active part of computer vision research, spanning several subfields of applied computer science. State-of-the-art techniques combine low-level image processing, deep-learning methods, structured output prediction, and discrete-optimization based approaches for image segmentation.
Project Although significant progress has been made already, the goal of getting automated segmentations accurate enough to answer biological questions has not been reached yet. This project aims at improving the state of the art and developing new methods for this interesting and challenging goal. The project will include working on following problems:
- investigation of novel segmentation methods for EM volumes
- incorporation of biological priors
- learning of model parameters from sparse human annotations
- development of distributed systems for large-scale reconstruction
The project will be carried out in collaboration with the HCI Heidelberg (Germany) and the Universitat Politècnica de Catalunya (Spain).
How to apply? Applicants should have a strong background in computer science. Experiences in applied machine learning (including deep learning and structured output prediction), computer vision, probabilistic graphical models, or high performance computing are a plus. The starting date is flexible. Please send us an email with your CV at funke@ini.ethz.ch (Jan Funke) for further information.