maximize

Dr. Benjamin Berkels

Now Juniorprofessor for Mathematical Image and Signal Processing and Junior Research Group Leader Aachen Institute for Advanced Study in Computational Engineering Science, RWTH Aachen.

 

Publications

 
[1] R. Tatano, B. Berkels, and T. M. Deserno. Mesh-to-raster based non-rigid registration of multi-modal images. Technical Report arXiv:1703.01972 [cs.CV], arXiv, March 2017. [ bib | http ]
[2] R. Tatano, E. E. Ehrlich, B. Berkels, E. Sirazitdinova, T. M. Deserno, and U. B. Fritz. Reproducibility of manually marked demineralisations in quantitative light-induced fluorescence (QLF) images and digital photographs. Journal of Orofacial Orthopedics, 78(2):137-143, March 2017. [ bib | DOI ]
[3] B. Berkels, M. Buchner, A. Effland, M. Rumpf, and S. Schmitz-Valckenberg. GPU based image geodesics for optical coherence tomography. In Bildverarbeitung für die Medizin, Informatik aktuell, pages 68-73. Springer, 2017. [ bib | DOI | .pdf ]
[4] B. Berkels, A. Effland, and M. Rumpf. A posteriori error control for the binary Mumford-Shah model. Math. Comp., 86(306):1769-1791, 2017. [ bib | DOI | arXiv | .pdf | Abstract ]
[5] B. Berkels and B. Wirth. Joint denoising and distortion correction of atomic scale scanning transmission electron microscopy images. Inverse Problems, 33(9):095002, 2017. [ bib | DOI | arXiv ]
[6] N. Mevenkamp, B. Berkels, and M. Duchamp. Denoising electron-energy loss data using non-local means filters. In Microscopy and Microanalysis, volume 23 (Supplement S1), pages 106-107, 2017. [ bib | DOI ]
[7] Y. Wang, L. Jones, B. Berkels, W. Sigle, and P. A. van Aken. Measuring the cation and oxygen atomic column displacement at picometer precision. In Microscopy and Microanalysis, volume 23 (Supplement S1), pages 1612-1613, 2017. [ bib | DOI ]
[8] C. Zhang, B. Berkels, B. Wirth, and P. M. Voyles. Joint denoising and distortion correction for atomic column detection in scanning transmission electron microscopy images. In Microscopy and Microanalysis, volume 23 (Supplement S1), pages 164-165, 2017. [ bib | DOI ]
[9] B. Berkels, T. M. Deserno, E. E. Ehrlich, U. B. Fritz, E. Sirazitdinova, and R. Tatano. Curve-to-image based non-rigid registration of digital photos and quantitative light-induced fluorescence images in dentistry. In Bildverarbeitung für die Medizin 2016, Informatik aktuell, pages 80-85. Springer, 2016. [ bib | DOI ]
[10] B. Berkels, T. M. Deserno, E. E. Ehrlich, U. B. Fritz, E. Sirazitdinova, and R. Tatano. Non-rigid contour-to-pixel registration of photographic and quantitative light-induced fluorescence imaging of decalcified teeth. In Proceedings of SPIE - Medical Imaging, volume 9784, pages 97840Z-1-97840Z-7, 2016. [ bib | DOI ]
[11] B. Berkels and N. Mevenkamp. Denoising of atomic-scale images based on automatic grain segmentation, unsupervised primitive unit cell extraction and periodic block-matching. In Microscopy and Microanalysis, volume 22 (Supplement S3), pages 1404-1405, 2016. [ bib | DOI ]
[12] C. Huang, B. Berkels, and A. Kirkland. Non-rigid image registration of low-dose image series of zeolite materials. In European Microscopy Congress 2016: Proceedings, 2016. [ bib | DOI ]
[13] A. P. Keszei, B. Berkels, and T. M. Deserno. Survey of non-rigid registration tools in medicine. Journal of Digital Imaging, pages 1-15, 2016. [ bib | DOI | http ]
[14] N. Mevenkamp and B. Berkels. Variational multi-phase segmentation using high-dimensional local features. In IEEE Winter Conference on Applications of Computer Vision (WACV 2016). IEEE, 2016. [ bib | DOI ]
[15] N. Mevenkamp and B. Berkels. Non-local averaging in em: decreasing the required electron dose in crystal image reconstruction without losing spatial resolution. In European Microscopy Congress 2016: Proceedings, 2016. [ bib | DOI ]
[16] N. Mevenkamp and B. Berkels. Unsupervised and accurate extraction of primitive unit cells from crystal images. In Proceedings of the 37th German Conference on Pattern Recognition (GCPR), volume 9358 of Lecture Notes in Computer Science, pages 105-116. Springer, November 2015. [ bib | DOI ]
[17] B. Berkels, A. Effland, and M. Rumpf. Time discrete geodesic paths in the space of images. SIAM J. Imaging Sci., 8(3):1457-1488, 2015. [ bib | DOI | arXiv | .pdf | Abstract ]
[18] K. Chen, A. Derksen, S. Heldmann, M. Hallmann, and B. Berkels. Deformable image registration with automatic non-correspondence detection. In Fifth International Conference on Scale Space and Variational Methods in Computer Vision, Lecture Notes in Computer Science, pages 360-371, 2015. [ bib | DOI ]
[19] A. Derksen, S. Heldmann, T. Polzin, and B. Berkels. Image registration with sliding motion constraints for 4D CT motion correction. In Bildverarbeitung für die Medizin 2015, Informatik aktuell, pages 335-340. Springer, 2015. [ bib | DOI ]
[20] S. Heldmann, A. Derksen, T. Polzin, and B. Berkels. An image registration framework for sliding motion with piecewise smooth deformations. In Fifth International Conference on Scale Space and Variational Methods in Computer Vision, Lecture Notes in Computer Science, pages 335-347, 2015. [ bib | DOI ]
[21] R. E. Isele-Holder, B. Berkels, and A. E. Ismail. Smoothing of contact lines in spreading droplets by trisiloxane surfactants and its relevance for superspreading. Soft Matter, 2015. [ bib | DOI ]
[22] N. Mevenkamp, P. Binev, W. Dahmen, P. M. Voyles, A. B. Yankovich, and B. Berkels. Poisson noise removal from high-resolution STEM images based on periodic block-matching. Advanced Structural and Chemical Imaging, 1, 2015. [ bib | DOI ]
[23] A. B. Yankovich, B. Berkels, W. Dahmen, P. Binev, and P. M. Voyles. High-precision scanning transmission electron microscopy at coarse pixel sampling for reduced electron dose. Advanced Structural and Chemical Imaging, 1, 2015. [ bib | DOI ]
[24] A. B. Yankovich, B. Berkels, W. Dahmen, P. Binev, S. I. Sanchez, S. A. Bradley, A. Li, I. Szlufarska, and P. M. Voyles. Picometre-precision analysis of scanning transmission electron microscopy images of platinum nanocatalysts. Nature Communications, 5, June 2014. [ bib | DOI ]
[25] B. Berkels, I. Cabrilo, S. Haller, M. Rumpf, and K. Schaller. Co-registration of intra-operative brain surface photographs and pre-operative MR images. International Journal of Computer Assisted Radiology and Surgery, 9(3):387-400, May 2014. [ bib | DOI | .pdf ]
[26] B. Berkels, P. Binev, D. A. Blom, W. Dahmen, R. C. Sharpley, and T. Vogt. Optimized imaging using non-rigid registration. Ultramicroscopy, 138:46-56, Mar. 2014. [ bib | DOI | arXiv | .pdf ]
[27] C. Heck, L. Ruthotto, J. Modersitzki, and B. Berkels. Model-based parameterestimation in DCE-MRI without an arterial input function. In Bildverarbeitung für die Medizin 2014, Informatik aktuell, pages 246-251. Springer, 2014. [ bib | DOI | Abstract ]
[28] N. Mevenkamp, A. B. Yankovich, P. M. Voyles, and B. Berkels. Non-local means for scanning transmission electron microscopy images and poisson noise based on adaptive periodic similarity search and patch regularization. In J. Bender, A. Kuijper, T. von Landesberger, H. Theisel, and P. Urban, editors, Vision, Modeling and Visualization, pages 63-70. Eurographics Association, 2014. [ bib | DOI ]
[29] A. K. Trull, B. Berkels, and J. Modersitzki. Glomerular filtration rate estimation from dynamic contrast-enhanced MRI using a separable compartment model and parameter elimination. In Bildverarbeitung für die Medizin 2014, Informatik aktuell, pages 30-35. Springer, 2014. [ bib | DOI ]
[30] B. Berkels, S. Bauer, S. Ettl, O. Arold, J. Hornegger, and M. Rumpf. Joint surface reconstruction and 4D deformation estimation from sparse data and prior knowledge for marker-less respiratory motion tracking. Medical Physics, 40(9):091703, September 2013. [ bib | DOI ]
[31] A. B. Yankovich, B. Berkels, W. Dahmen, R. C. Sharpley, P. Binev, and P. M. Voyles. Measuring surface atom bond length contraction in Au and Pt nanoparticles using high-precision STEM imaging. In Microscopy and Microanalysis, volume 19 (Supplement 2), pages 1688-1689. Cambridge University Press, August 2013. [ bib | DOI ]
[32] B. Berkels, I. Cabrilo, S. Haller, M. Rumpf, and K. Schaller. Co-registration of intra-operative photographs and pre-operative MR images. In Bildverarbeitung für die Medizin 2013, Informatik aktuell, pages 122-127. Springer, 2013. [ bib | DOI | .pdf ]
[33] B. Berkels, P. T. Fletcher, B. Heeren, M. Rumpf, and B. Wirth. Discrete geodesic regression in shape space. In Proc. of International Conference on Energy Minimization Methods in Computer Vision and Pattern Recognition, volume 8081 of Lecture Notes in Computer Science, pages 108-122. Springer, 2013. [ bib | DOI | .pdf ]
[34] J. Iglesias, B. Berkels, M. Rumpf, and O. Scherzer. A thin shell approach to the registration of implicit surfaces. In M. Bronstein, J. Favre, and K. Hormann, editors, Vision, Modeling and Visualization, pages 89-96. Eurographics Association, 2013. [ bib | DOI | .pdf ]
[35] S. Bauer, B. Berkels, S. Ettl, O. Arold, J. Hornegger, and M. Rumpf. Marker-less reconstruction of dense 4-d surface motion fields using active laser triangulation from sparse measurements for respiratory motion management. In Medical Image Computing and Computer-Assisted Intervention (MICCAI), volume 7510 of Lecture Notes in Computer Science, pages 414-421. Springer, 2012. [ bib | DOI | .pdf ]
[36] B. Berkels, A. B. Yankovich, F. Shi, P. M. Voyles, W. Dahmen, R. C. Sharpley, and P. Binev. High precision STEM imaging by non-rigid alignment and averaging of a series of short exposures. In Microscopy and Microanalysis, volume 18 (Supplement 2), pages 300-301, 2012. [ bib | DOI | .pdf ]
[37] S. Bauer, B. Berkels, J. Hornegger, and M. Rumpf. Joint ToF image denoising and registration with a CT surface in radiation therapy. In Third International Conference on Scale Space Methods and Variational Methods in Computer Vision, Lecture Notes in Computer Science, pages 98-109. Springer, 2011. [ bib | DOI | .pdf ]
[38] B. Berkels, M. Kotowski, M. Rumpf, and C. Schaller. Sulci detection in photos of the human cortex based on learned discriminative dictionaries. In Third International Conference on Scale Space Methods and Variational Methods in Computer Vision, Lecture Notes in Computer Science, pages 326-337. Springer, 2011. [ bib | DOI | .pdf ]
[39] B. Berkels. Joint methods in imaging based on diffuse image representations. Dissertation, University of Bonn, 2010. [ bib | http | Abstract ]
[40] B. Berkels, G. Linkmann, and M. Rumpf. An SL(2) invariant shape median. Journal of Mathematical Imaging and Vision, 37(2):85-97, 2010. [ bib | DOI | .pdf ]
[41] M. Boerdgen, B. Berkels, M. Rumpf, and D. Cremers. Convex relaxation for grain segmentation at atomic scale. In D. Fellner, editor, Vision, Modeling and Visualization, pages 179-186. Eurographics Association, 2010. [ bib | DOI | .pdf ]
[42] C. Nieuwenhuis, B. Berkels, M. Rumpf, and D. Cremers. Interactive motion segmentation. In 32nd DAGM Symposium on Pattern Recognition, volume 6376 of Lecture Notes in Computer Science, pages 483-492. Springer, 2010. [ bib | DOI | .pdf ]
[43] B. Berkels. An unconstrained multiphase thresholding approach for image segmentation. In Proceedings of the Second International Conference on Scale Space Methods and Variational Methods in Computer Vision (SSVM 2009), volume 5567 of Lecture Notes in Computer Science, pages 26-37. Springer, 2009. [ bib | DOI | .pdf ]
[44] B. Berkels, C. Kondermann, C. Garbe, and M. Rumpf. Reconstructing optical flow fields by motion inpainting. In 7th International Conference on Energy Minimization Methods in Computer Vision and Pattern Recognition, volume 5681 of Lecture Notes in Computer Science, pages 388-400. Springer, 2009. [ bib | DOI | .pdf ]
[45] B. Berkels, A. Rätz, M. Rumpf, and A. Voigt. Extracting grain boundaries and macroscopic deformations from images on atomic scale. Journal of Scientific Computing, 35(1):1-23, April 2008. [ bib | DOI | .pdf ]
[46] J. F. Acker, B. Berkels, K. Bredies, M. S. Diallo, M. Droske, C. S. Garbe, M. Holschneider, J. Hron, C. Kondermann, M. Kulesh, P. Mass, N. Olischläger, H.-O. Peitgen, T. Preusser, M. Rumpf, K. Schaller, F. Scherbaum, and S. Turek. Mathematical Methods in Time Series Analysis and Digital Image Processing, chapter Inverse Problems and Parameter Identification in Image Processing, pages 111-151. Understanding Complex Systems. Springer, 2008. [ bib | DOI | .pdf ]
[47] B. Berkels, G. Linkmann, and M. Rumpf. A shape median based on symmetric area differences. In O. Deussen, D. Keim, and D. Saupe, editors, Vision, Modeling and Visualization, pages 399-407. AKA Publishing, 2008. [ bib | .pdf ]
[48] J. Han, B. Berkels, M. Droske, J. Hornegger, M. Rumpf, C. Schaller, J. Scorzin, and H. Urbach. Mumford-Shah model for one-to-one edge matching. IEEE Transactions on Image Processing, 16(11):2720-2732, November 2007. [ bib | DOI | .pdf ]
[49] L. Bar, B. Berkels, M. Rumpf, and G. Sapiro. A variational framework for simultaneous motion estimation and restoration of motion-blurred video. In 11th IEEE International Conference on Computer Vision. IEEE, 2007. [ bib | DOI | .pdf ]
[50] B. Berkels, A. Rätz, M. Rumpf, and A. Voigt. Identification of grain boundary contours at atomic scale. In First International Conference on Scale Space Methods and Variational Methods in Computer Vision, volume 4485 of Lecture Notes in Computer Science, pages 765-776. Springer, 2007. [ bib | DOI | .pdf | Abstract ]
[51] B. Berkels, M. Burger, M. Droske, O. Nemitz, and M. Rumpf. Cartoon extraction based on anisotropic image classification. In Vision, Modeling and Visualization, pages 293-300. AKA Publishing, 2006. [ bib | .pdf ]
[52] J. Han, B. Berkels, M. Rumpf, J. Hornegger, M. Droske, M. Fried, J. Scorzin, and C. Schaller. A variational framework for joint image registration, denoising and edge detection. In Bildverarbeitung für die Medizin, pages 246-250. Springer, 2006. [ bib | DOI | .pdf ]
[53] B. Berkels. Gradientenflussmethoden bei inversen Problemen in der Fernerkennung. Diploma thesis, University of Duisburg-Essen, 2005. [ bib | .pdf ]
[54] B. Berkels, U. Clarenz, S. Crewell, U. Löhnert, M. Rumpf, and C. Simmer. A physical temperatur profiling method using gradient flows. In Microwave Radiometry and Remote Sensing Applications, Feb. 2004, Rome, Italy, 2004. [ bib | .pdf | Abstract ]