All Publications

2015
Cali, C, Baghabra, J, Boges, D J, Holst, G R, Kreshuk, A, Hamprecht, F A, Srinivasan, M, Lehväslaiho, H and Magistretti, P J (2015). Three-dimensional immersive virtual reality for studying cellular compartments in 3D models from EM preparations of neural tissues. Journal of Comparative Neurology. 524 23-38 DOI Google Scholar BibTeX RTF EndNote XML
Funke, J, Hamprecht, F A and Zhang, C (2015). Learning to Segment: Training Hierarchical Segmentation under a Topological Loss. MICCAI. Proceedings, Part III. Springer. 9351 268-275 DOI Google Scholar BibTeX RTF EndNote XML Technical Report (2.92 MB)
Kandemir, M (2015). Asymmetric transfer learning with deep Gaussian processes. ICML. Proceedings. 730-738 Google Scholar BibTeX RTF EndNote XML Technical Report (570.95 KB)
Kandemir, M and Hamprecht, F A (2015). Cell event detection in phase-contrast microscopy sequences from few annotations. MICCAI. Proceedings. Springer. LNCS 9351 316-323 DOI Google Scholar BibTeX RTF EndNote XML Technical Report (564.69 KB)
Kappes, J H, Andres, B, Hamprecht, F A, Schnörr, C, Nowozin, S, Batra, D, Kim, S, Kausler, B X, Kröger, T, Lellmann, J, Komodakis, N, Savchynskyy, B and Rother, C (2015). A Comparative Study of Modern Inference Techniques for Structured Discrete Energy Minimization Problems. International Journal of Computer Vision. 1-30 DOI Google Scholar BibTeX RTF EndNote XML Technical Report (1.5 MB)
Kauppi, J P, Kandemir, M, Saarinen, V M, Hirvenkari, L, Parkkonen, L, Klami, A, Hari, R and Kaski, S (2015). Towards brain-activity-controlled information retrieval: Decoding image relevance from MEG signals. NeuroImage. 112 288-298 DOI Google Scholar BibTeX RTF EndNote XML Technical Report (2.39 MB)
Kandemir, M and Hamprecht, F A (2015). The Deep Feed-Forward Gaussian Process: An Effective Generalization to Covariance Priors. NIPS. Proceedings. 44 145-159 Google Scholar BibTeX RTF EndNote XML Supplementary Material (223.39 KB) Technical Report (2.58 MB)
Krasowski, N, Beier, T, Knott, G W, Köthe, U, Hamprecht, F A and Kreshuk, A (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 DOI Google Scholar BibTeX RTF EndNote XML Technical Report (2.25 MB)
Kreshuk, A, Funke, J, Cardona, A and Hamprecht, F A (2015). Who is talking to whom: synaptic partner detection in anisotropic volumes of insect brain. MICCAI. Proceedings. Springer. LNCS 9349 661-668 DOI Google Scholar BibTeX RTF EndNote XML Technical Report (2.14 MB)
Kreshuk, A, Walecki, R, Köthe, U, Gierthmühlen, M, Plachta, D, Genoud, C, Haastert-Talini, K and Hamprecht, F A (2015). 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 DOI Google Scholar BibTeX RTF EndNote XML
Schiegg, M, Heuer, B, Haubold, C, Wolf, S, Köthe, U and Hamprecht, F A (2015). Proof-reading Guidance in Cell Tracking by Sampling from Tracking-by-assignment Models. ISBI. Proceedings. 394-398 DOI Google Scholar BibTeX RTF EndNote XML Technical Report (648.55 KB)
Schiegg, M, Hanslovsky, P, Haubold, C, Köthe, U, Hufnagel, L and Hamprecht, F A (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 DOI Google Scholar BibTeX RTF EndNote XML Technical Report (534.29 KB)
Schiegg, M (2015). Multi-Target Tracking with Probabilistic Graphical Models. University of Heidelberg Google Scholar BibTeX RTF EndNote XML

2014
Kröger, T, Kappes, J H, Beier, T, Köthe, U and Hamprecht, F A (2014). 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 DOI Google Scholar BibTeX RTF EndNote XML Technical Report (3.46 MB)
Lindner, R, Lou, X, Reinstein, J, Shoeman, R L, Hamprecht, F A and Winkler, A (2014). Hexicon 2: Automated Processing of Hydrogen-Deuterium Exchange Mass Spectrometry Data with Improved Deuteration Distribution Estimation. Journal of The American Society for Mass Spectrometry. 25 1018-1028 DOI Google Scholar BibTeX RTF EndNote XML Technical Report (2.1 MB)
Kreshuk, A, Köthe, U, Pax, E, Bock, D D and Hamprecht, F A (2014). Automated Detection of Synapses in Serial Section Transmission Electron Microscopy Image Stacks. PLoS ONE. 9 2 DOI Google Scholar BibTeX RTF EndNote XML Technical Report (16.66 MB)
Zhang, C, Yarkony, J and Hamprecht, F A (2014). Cell detection and segmentation using correlation clustering. MICCAI. Proceedings. Springer. 9-16 DOI Google Scholar BibTeX RTF EndNote XML Technical Report (8.06 MB)
Zhang, C, Huber, F, Knop, M and Hamprecht, F A (2014). Yeast Cell Detection and Segmentation in Bright Field Microscopy. ISBI. Proceedings. IEEE Computer Society. 1267-1270 DOI Google Scholar BibTeX RTF EndNote XML Technical Report (4.13 MB)
Yarkony, J, Zhang, C and Fowlkes, C C (2014). Hierarchical Planar Correlation Clustering for Cell Segmentation. EMMCVPR. Proceedings. Springer. 8932 492-504 DOI Google Scholar BibTeX RTF EndNote XML Technical Report (548.12 KB)
Wieler, M (2014). Multiple Instance Learning with Random Forests and Applications in Industrial Optical Inspection. University of Heidelberg Google Scholar BibTeX RTF EndNote XML
Welbl, J (2014). Casting Random Forests as Artificial Neural Networks (and Profiting from It). GCPR. Proceedings. 765-771 DOI Google Scholar BibTeX RTF EndNote XML Technical Report (376.24 KB)
Urban, G, Bendszus, M, Hamprecht, F A and Kleesiek, J (2014). Multi-modal Brain Tumor Segmentation using Deep Convolutional NeuralNetworks. MICCAI BraTS (Brain Tumor Segmentation) Challenge. Proceedings, winningcontribution. 31-35 Google Scholar BibTeX RTF EndNote XML
Urban, G (2014). Neural Networks: Optimization And Applications. University of Heidelberg Google Scholar BibTeX RTF EndNote XML
Tek, B F, Kröger, T, Mikula, S and Hamprecht, F A (2014). Automated Cell Nucleus Detection for Large-Volume Electron Microscopy of Neural Tissue. ISBI. Proceedings. 69-72 DOI Google Scholar BibTeX RTF EndNote XML Technical Report (533.92 KB)
Straehle, C N, Kandemir, M, Köthe, U and Hamprecht, F A (2014). Multiple instance learning with response-optimized random forests. ICPR. Proceedings. 3768 - 3773 DOI Google Scholar BibTeX RTF EndNote XML Technical Report (296.66 KB)
Straehle, C N (2014). Interactive Segmentation, Uncertainty and Learning. University of Heidelberg Google Scholar BibTeX RTF EndNote XML
Beier, T, Kröger, T, Kappes, J H, Köthe, U and Hamprecht, F A (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 DOI Google Scholar BibTeX RTF EndNote XML Technical Report (10.06 MB)
Lou, X, Schiegg, M and Hamprecht, F A (2014). Active Structured Learning for Cell Tracking: Algorithm, Framework and Usability. IEEE Transactions on Medical Imaging. 33 (4) 849-860 DOI Google Scholar BibTeX RTF EndNote XML Technical Report (6.84 MB)
Maco, B, Cantoni, M, Holtmaat, A, Kreshuk, A, Hamprecht, F A and Knott, G W (2014). Semiautomated Correlative 3D Electron Microscopy of In Vivo Imaged Axons and Dendrites. Nature Protocols. 9 1354-1366 DOI Google Scholar BibTeX RTF EndNote XML Technical Report (2.01 MB)
Lou, X, Kloft, M, Rätsch, G and Hamprecht, F A (2014). Structured Learning from Cheap Data. Advanced Structured Prediction. The MIT Press Google Scholar BibTeX RTF EndNote XML Technical Report (8.35 MB)
Beier, T (2014). Graph Based Image Analysis. University of Heidelberg Google Scholar BibTeX RTF EndNote XML
Blumenthal, F (2014). Information-Geometric Optimization For Image Segmentation. University of Heidelberg Google Scholar BibTeX RTF EndNote XML
Decker, C (2014). Automated Animal Behavior Classification. University of Heidelberg Google Scholar BibTeX RTF EndNote XML
Decker, C and Hamprecht, F A (2014). Detecting individual body parts improves mouse behavior classification. Workshop on visual observation and analysis of Vertebrate And Insect Behavior (VAIB), 22nd International Conference on Pattern Recognition (ICPR). Proceedings Google Scholar BibTeX RTF EndNote XML Technical Report (1.48 MB)
Diego, F and Hamprecht, F A (2014). Sparse Space-Time Deconvolution for Calcium Image Analysis. NIPS. Proceedings. 64-72. http://papers.nips.cc/paper/5342-sparse-space-time-deconvolution-for-calcium-image-analysis Google Scholar BibTeX RTF EndNote XML Technical Report (5.27 MB)
Drory, A, Haubold, C, Avidan, S and Hamprecht, F A (2014). Semi-Global Matching: A Principled Derivation in Terms of Message Passing. GCPR. Proceedings. 43-53 DOI Google Scholar BibTeX RTF EndNote XML Technical Report (2.6 MB)
Fiaschi, L, Diego, F, Grosser, K - H, Schiegg, M, Köthe, U, Zlatic, M and Hamprecht, F A (2014). Tracking indistinguishable translucent objects over time using weakly supervised structured learning. CVPR. Proceedings. 2736 - 2743 DOI Google Scholar BibTeX RTF EndNote XML Technical Report (1.47 MB)
Kröger, (2014). Learning-based Segmentation for Connectomics. University of Heidelberg Google Scholar BibTeX RTF EndNote XML
Kleesiek, J, Biller, A, Urban, G, Köthe, U, Bendszus, M and Hamprecht, F A (2014). ilastik for Multi-modal Brain Tumor Segmentation. MICCAI BraTS (Brain Tumor Segmentation) Challenge. Proceedings, 3rdplace. 12-17 Google Scholar BibTeX RTF EndNote XML Technical Report (405.91 KB)
Kandemir, M, Rubio, J C, Schmidt, U, Wojek, C, Welbl, J, Ommer, B and Hamprecht, F A (2014). Event Detection by Feature Unpredictability in Phase-Contrast Videos of Cell Cultures. Medical Image Computing and Computer-Assisted Intervention. Springer. 154--161 Google Scholar BibTeX RTF EndNote XML Technical Report (2 MB)

All Publications

2015

2014

Pages