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PhD position in computational anatomy

A PhD position in computational anatomy is available at the Image Section at the Department of Computer Science, University of Copenhagen, supervised by Associate Professor, Aasa Feragen ( and co-supervised by Associate Professor, Sune Darkner (

Project description
Current computational models of anatomy assume that any human can be represented by the same “template”. For instance, a brain with a tumor is assumed to be a 1-1 diffeomorphic deformation of a brain with no tumor. This is obviously incorrect: Organs vary both in condition and relative arrangement, and disease manifests itself as the appearance of tumors, bleeds or other ''artifacts''. Since statistics and machine learning inherently depend on interpolation between data objects, the incorrect fixed template assumption needed by current model of the brain leaves them incapable of correctly describing both healthy anatomy and patients with a disease. The derived statistics are therefore incorrect, potentially leading to incorrect computer-aided diagnoses. The goal of this PhD project is to enable image registration with topological differences by developing computational tools for stratified  diffeomorphic image registration with topological transitions.

The PhD student must have
  • An unstoppable drive and excitement for tackling numerical and geometric challenges in medical image analysis
  • A documented solid background in either numerical analysis or scientific computing
  • Programming experience including at least one of C/C++, Python, Matlab, R
  • A MSc degree in Computer Science, Mathematics/Statistics, Engineering,  Physics or similar; or alternatively a BSc degree plus one year of MSc studies in Computer Science, Mathematics/Statistics, Engineering, Physics or similar.
  • No fear of mathematics
In addition, it is an advantage if the candidate has experience with one 
or more of the following:
  • Differential and Riemannian geometry
  • Discrete or continuous optimization
  • Geometry and topology
  • Image analysis/computer vision
  • Simulation and scientific computing
We offer:
  • A fully financed position in a 3-year PhD programme
  • A rare position at the intersection of advanced mathematical models and real solutions to real problems
  • An international and active interdisciplinary research environment in image computing and data science
  • We aim to fill the position by fall 2017. For enquiries about the position, please contact Aasa Feragen (
How to apply:
Press “APPLY NOW” to fill in the application form. Applications received after the deadline, or with insufficient documentation or otherwise not complying with the above requirements, may not be considered. 

Deadline for applications is April 30, at 23.59 local Danish time.

Terms of Employment
The position is covered by the Memorandum on Job Structure for Academic Staff. Terms of appointment and payment accord to the agreement between the Ministry of Finance and The Danish Confederation of Professional Associations on Academics in the State. For students with a Master Degree the starting salary is currently at a minimum DKK 309,109 including annual supplement (+ pension up to DKK 42,699). Negotiation for salary supplement is possible.

Potential applicants from outside of Denmark can find information about life in Denmark – including information on taxation and health care – at and

The University of Copenhagen wishes to reflect the diversity of society and welcomes applications from all qualified candidates regardless of personal background.

The University of Copenhagen actively influences current and future generations through excellent research, education and co-operation. UCPH is one of the highest ranked universities in Europe and is Denmark’s oldest university, founded in 1479. Today, the University has 37,000 students and 9,000 employees affiliated across six faculties: humanities, law, natural sciences, social sciences, health sciences and theology.

Part of the International Alliance of Research Universities (IARU), and among Europe’s top-ranking universities, the University of Copenhagen promotes research and teaching of the highest international standard. Rich in tradition and modern in outlook, the University gives students and staff the opportunity to cultivate their talent in an ambitious and informal environment. An effective organisation – with good working conditions and a collaborative work culture – creates the ideal framework for a successful academic career.


Aasa Feragen


Application deadline: 30-04-2017
Employment type: Limited period
Department/Location: Department of Computer Science

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