Publications
An Efficient Fusion Move Algorithm for the Minimum Cost Lifted Multicut Problem. ECCV. Proceedings. Springer. LNCS 9906 715-730
Technical Report (4.89 MB)
(2016). 
Segmenting and Tracking Multiple Dividing Targets Using ilastik. Focus on Bio-Image Informatics. Springer. 219 199-229
Technical Report (4.46 MB)
(2016). 
Virtual Raters for Reproducible and Objective Assessments in Radiology. Nature Scientific Reports. 6
Technical Report (2.81 MB)
(2016). 
Automated Tracing of Myelinated Axons and Detection of the Nodes of Ranvier in Serial Images of Peripheral Nerves. Journal of Microscopy. 259 (2) 143-154
(2015). Graphical Model for Joint Segmentation and Tracking of Multiple Dividing Cell. Bioinformatics. 31 948-956. http://bioinformatics.oxfordjournals.org/content/early/2014/11/17/bioinformatics.btu764.full.pdf?keytype=ref&ijkey=mTXWsiFrci7R8tc
Technical Report (534.29 KB)
(2015). 
Improving 3D EM Data Segmentation by Joint Optimization over Boundary Evidence and Biological Priors. 12th {IEEE} International Symposium on Biomedical Imaging, {ISBI} 2015, Brooklyn, NY, USA, April 16-19, 2015. 536-539
Technical Report (2.25 MB)
(2015). 
Proof-reading Guidance in Cell Tracking by Sampling from Tracking-by-assignment Models. ISBI. Proceedings. 394-398
Technical Report (648.55 KB)
(2015). 
Asymmetric Cuts: Joint Image Labeling and Partitioning. Pattern Recognition - 36th German Conference, {GCPR} 2014, Münster, Germany, September 2-5, 2014, Proceedings. http://dx.doi.org/10.1007/978-3-319-11752-2_16
Technical Report (3.46 MB)
(2014). 
Automated Detection of Synapses in Serial Section Transmission Electron Microscopy Image Stacks. PLoS ONE. 9 2
Technical Report (16.66 MB)
(2014). 
Cut, Glue and Cut: A Fast, Approximate Solver for Multicut Partitioning. 2014 {IEEE} Conference on Computer Vision and Pattern Recognition, {CVPR} 2014, Columbus, OH, USA, June 23-28, 2014. http://dx.doi.org/10.1109/CVPR.2014.17
Technical Report (10.06 MB)
(2014). 
ilastik for Multi-modal Brain Tumor Segmentation. MICCAI BraTS (Brain Tumor Segmentation) Challenge. Proceedings, 3rdplace. 12-17
Technical Report (405.91 KB)
(2014). 
Multiple instance learning with response-optimized random forests. ICPR. Proceedings. 3768 - 3773
Technical Report (296.66 KB)
(2014). 
SimpleSTORM: a fast, self-calibrating reconstruction algorithm for localization microscopy. Histochemistry and Cell Biology. 141 613-627
Technical Report (2.29 MB)
(2014). 
Tracking indistinguishable translucent objects over time using weakly supervised structured learning. CVPR. Proceedings. 2736 - 2743
Technical Report (1.47 MB)
(2014). 
K-smallest Spanning Tree Segmentations. German Conference on Pattern Recognition (DAGM/GCPR). Proceedings. Springer. 375-384
Technical Report (1.18 MB)
(2013). 
Learning to Segment Neurons with Non-local Quality Measures. MICCAI 2013. Proceedings, part II. Springer. 8150 419-427
Technical Report (2.87 MB)
(2013). 
Weakly supervised learning of image partitioning using decision trees with structured split criteria. ICCV 2013. Proceedings. 1849-1856
Technical Report (5.97 MB)
(2013). 
3D Segmentation of SBFSEM Images of Neuropil by a Graphical Model over Supervoxel Boundaries. Medical Image Analysis. 16 (2012) 796-805
Technical Report (20.85 MB)
(2012). 
Active Learning for Convenient Annotation and Classification of Secondary Ion Mass Spectrometry Images. Analytical Chemistry. 85 (1) 147-155
Technical Report (2.58 MB)
(2012). 
A Discrete Chain Graph Model for 3d+t Cell Tracking with High Misdetection Robustness. ECCV 2012. Proceedings. 7574 144-157
Technical Report (809.07 KB)
(2012). 
Globally Optimal Closed-Surface Segmentation for Connectomics. ECCV 2012. Proceedings, Part 3. 778-791
Technical Report (2.72 MB)
(2012). 
The Lazy Flipper: Efficient Depth-limited Exhaustive Search in Discrete Graphical Models. ECCV 2012
Technical Report (532.64 KB)
(2012). 
The Lazy Flipper: Efficient Depth-Limited Exhaustive Search in Discrete Graphical Models. Computer Vision - {ECCV} 2012 - 12th European Conference on Computer Vision, Florence, Italy, October 7-13, 2012, Proceedings, Part {VII}. http://dx.doi.org/10.1007/978-3-642-33786-4_12
Technical Report (446.28 KB)
(2012). 
Learning to Count with Regression Forest and Structured Labels. ICPR 2012. Proceedings. 2685-2688
Technical Report (3.66 MB)
(2012). 
Quality Classification of Microscopic Imagery with Weakly Supervised Learning. MICCAI-MLMI. Proceedings. 176-183
Technical Report (4.15 MB)
(2012). 
Seeded watershed cut uncertainty estimators for guided interactive segmentation. CVPR 2012. Proceedings. 765 - 772
Technical Report (2.84 MB)
(2012). 
Automated Detection and Segmentation of Synaptic Contacts in Nearly Isotropic Serial Electron Microscopy Images. PLoS ONE. 6 (10)
Technical Report (290.48 KB)
(2011). 
Automated Segmentation of Synapses in 3D EM Data. Eighth IEEE International Symposium on Biomedical Imaging (ISBI 2011).
Proceedings. 220-223
(2011). Carving: Scalable Interactive Segmentation of Neural Volume Electron Microscopy Images. MICCAI 2011, Proceedings. Springer. 6891 653-660
Technical Report (1.69 MB)
(2011). 
DELTR: Digital Embryo Lineage Tree Reconstructor. Eighth IEEE International Symposium on Biomedical Imaging (ISBI). Proceedings. 1557-1560
Technical Report (1.44 MB)
(2011). 
ilastik: Interactive Learning and Segmentation Toolkit. Eighth IEEE International Symposium on Biomedical Imaging (ISBI 2011).Proceedings. 230-233
(2011). On oblique random forests. European Conference on Machine Learning and Principles and Practice of Knowledge Discovery in Databases 2011. Proceedings. Springer. 453-469
Technical Report (665.33 KB)
(2011). 
Probabilistic Image Segmentation with Closedness Constraints. ICCV, Proceedings. 2611 - 2618
Technical Report (8.18 MB)
(2011). 
Probabilistic Image Segmentation with Closedness Constraints. Proceedings of ICCV
Technical Report (2.95 MB)
(2011). 
SIMA: Simultaneous Multiple Alignment of LC/MS Peak Lists. Bioinformatics. 27 (7) 987-993
Technical Report (2.2 MB)
(2011). 