Jan Funke

According to our database, Jan Funke authored at least 31 papers between 2009 and 2024.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2024

DaCapo: a modular deep learning framework for scalable 3D image segmentation.

William Patton, Jeff L. Rhoades, Marwan Zouinkhi, David G. Ackerman, Caroline Malin-Mayor, Diane Adjavon, Larissa Heinrich, Davis Bennett, Yurii Zubov, CellMap Project Team, Aubrey V. Weigel, Jan Funke

CoRR, 2024

2023

Unsupervised Learning of Object-Centric Embeddings for Cell Instance Segmentation in Microscopy Images.

Steffen Wolf, Manan Lalit, Henry Westmacott, Katie McDole, Jan Funke

CoRR, 2023

Unpaired Image Enhancement for Neurite Segmentation in x-ray Tomography.

Jeff L. Rhoades, Arlo Sheridan, Mukul Narwani, Brian Reicher, Mark Larson, Shuhan Xie, Tri Nguyen, Aaron T. Kuan, Alexandra Pacureanu, Wei-Chung Allen Lee, Jan Funke

Proceedings of the 20th IEEE International Symposium on Biomedical Imaging, 2023

Unsupervised Learning of Object-Centric Embeddings for Cell Instance Segmentation in Microscopy Images.

Steffen Wolf, Manan Lalit, Katie McDole, Jan Funke

Proceedings of the IEEE/CVF International Conference on Computer Vision, 2023

2022

Tracking by Weakly-Supervised Learning and Graph Optimization for Whole-Embryo C. elegans lineages.

Peter Hirsch, Caroline Malin-Mayor, Anthony Santella, Stephan Preibisch, Dagmar Kainmueller, Jan Funke

Proceedings of the Medical Image Computing and Computer Assisted Intervention - MICCAI 2022, 2022

Discriminative Attribution from Paired Images.

Nils Eckstein, Habib Bukhari, Alexander S. Bates, Gregory S. X. E. Jefferis, Jan Funke

Proceedings of the Computer Vision - ECCV 2022 Workshops, 2022

2021

Discriminative Attribution from Counterfactuals.

Nils Eckstein, Alexander S. Bates, Gregory S. X. E. Jefferis, Jan Funke

CoRR, 2021

How Shift Equivariance Impacts Metric Learning for Instance Segmentation.

Josef Lorenz Rumberger, Xiaoyan Yu, Peter Hirsch, Melanie Dohmen, Vanessa Emanuela Guarino, Ashkan Mokarian, Lisa Mais, Jan Funke, Dagmar Kainmueller

Proceedings of the 2021 IEEE/CVF International Conference on Computer Vision, 2021

2020

Instance Separation Emerges from Inpainting.

Steffen Wolf, Fred A. Hamprecht, Jan Funke

CoRR, 2020

Microtubule Tracking in Electron Microscopy Volumes.

Nils Eckstein, Julia M. Buhmann, Matthew Cook, Jan Funke

Proceedings of the Medical Image Computing and Computer Assisted Intervention - MICCAI 2020, 2020

Inpainting Networks Learn to Separate Cells in Microscopy Images.

Steffen Wolf, Fred A. Hamprecht, Jan Funke

Proceedings of the 31st British Machine Vision Conference 2020, 2020

2019

Large Scale Image Segmentation with Structured Loss Based Deep Learning for Connectome Reconstruction.

Jan Funke, Fabian Tschopp, William Grisaitis, Arlo Sheridan, Chandan Singh, Stephan Saalfeld, Srinivas C. Turaga

IEEE Trans. Pattern Anal. Mach. Intell., 2019

2018

Synaptic Cleft Segmentation in Non-isotropic Volume Electron Microscopy of the Complete Drosophila Brain.

Larissa Heinrich, Jan Funke, Constantin Pape, Juan Nunez-Iglesias, Stephan Saalfeld

Proceedings of the Medical Image Computing and Computer Assisted Intervention - MICCAI 2018, 2018

Synaptic Partner Prediction from Point Annotations in Insect Brains.

Julia M. Buhmann, Renate Krause, Rodrigo Ceballos Lentini, Nils Eckstein, Matthew Cook, Srinivas C. Turaga, Jan Funke

Proceedings of the Medical Image Computing and Computer Assisted Intervention - MICCAI 2018, 2018

The candidate multi-cut for cell segmentation.

Jan Funke, Chong Zhang, Tobias Pietzsch, Miguel Ángel González Ballester, Stephan Saalfeld

Proceedings of the 15th IEEE International Symposium on Biomedical Imaging, 2018

A Benchmark for Epithelial Cell Tracking.

Jan Funke, Lisa Mais, Andrew Champion, Natalie Dye, Dagmar Kainmueller

Proceedings of the Computer Vision - ECCV 2018 Workshops, 2018

2017

A Deep Structured Learning Approach Towards Automating Connectome Reconstruction from 3D Electron Micrographs.

Jan Funke, Fabian Tschopp, William Grisaitis, Arlo Sheridan, Chandan Singh, Stephan Saalfeld, Srinivas C. Turaga

CoRR, 2017

The Candidate Multi-Cut for Cell Segmentation.

Jan Funke, Chong Zhang, Tobias Pietzsch, Stephan Saalfeld

CoRR, 2017

2016

Efficient convolutional neural networks for pixelwise classification on heterogeneous hardware systems.

Fabian Tschopp, Julien N. P. Martel, Srinivas C. Turaga, Matthew Cook, Jan Funke

Proceedings of the 13th IEEE International Symposium on Biomedical Imaging, 2016

Structured learning of assignment models for neuron reconstruction to minimize topological errors.

Jan Funke, Jonas Klein, Francesc Moreno-Noguer, Albert Cardona, Matthew Cook

Proceedings of the 13th IEEE International Symposium on Biomedical Imaging, 2016

Tracking of microtubules in anisotropic volumes of neural tissue.

Julia M. Buhmann, Stephan Gerhard, Matthew Cook, Jan Funke

Proceedings of the 13th IEEE International Symposium on Biomedical Imaging, 2016

Accurate and Linear Time Pose Estimation from Points and Lines.

Alexander Vakhitov, Jan Funke, Francesc Moreno-Noguer

Proceedings of the Computer Vision - ECCV 2016, 2016

2015

A Tolerant Edit Distance for Evaluation and Training of Electron Microscopy Reconstruction Algorithms.

Jan Funke, Jonas Klein, Albert Cardona, Matthew Cook

CoRR, 2015

Who Is Talking to Whom: Synaptic Partner Detection in Anisotropic Volumes of Insect Brain.

Anna Kreshuk, Jan Funke, Albert Cardona, Fred A. Hamprecht

Proceedings of the Medical Image Computing and Computer-Assisted Intervention - MICCAI 2015, 2015

Learning to Segment: Training Hierarchical Segmentation under a Topological Loss.

Jan Funke, Fred A. Hamprecht, Chong Zhang

Proceedings of the Medical Image Computing and Computer-Assisted Intervention - MICCAI 2015 - 18th International Conference Munich, Germany, October 5, 2015

2014

Automatic Neuron Reconstruction from Anisotropic Electron Microscopy Volumes.

Jan Funke

PhD thesis, 2014

Candidate Sampling for Neuron Reconstruction from Anisotropic Electron Microscopy Volumes.

Jan Funke, Julien N. P. Martel, Stephan Gerhard, Björn Andres, Dan C. Ciresan, Alessandro Giusti, Luca Maria Gambardella, Jürgen Schmidhuber, Hanspeter Pfister, Albert Cardona, Matthew Cook

Proceedings of the Medical Image Computing and Computer-Assisted Intervention - MICCAI 2014, 2014

Optimal Joint Segmentation and Tracking of Escherichia Coli in the Mother Machine.

Florian Jug, Tobias Pietzsch, Dagmar Kainmüller, Jan Funke, Matthias Kaiser, Erik van Nimwegen, Carsten Rother, Gene Myers

Proceedings of the Bayesian and grAphical Models for Biomedical Imaging, 2014

2012

Efficient automatic 3D-reconstruction of branching neurons from EM data.

Jan Funke, Björn Andres, Fred A. Hamprecht, Albert Cardona, Matthew Cook

Proceedings of the 2012 IEEE Conference on Computer Vision and Pattern Recognition, 2012

2011

Multi-Hypothesis CRF-Segmentation of Neural Tissue in Anisotropic EM Volumes

Jan Funke, Björn Andres, Fred A. Hamprecht, Albert Cardona, Matthew Cook

CoRR, 2011

2009

A Framework For Evaluating Visual SLAM.

Tobias Pietzsch, Jan Funke

Proceedings of the British Machine Vision Conference, 2009