Stephan Saalfeld

29 papers B 1Journal 23Unranked 5
YearRankTypeTitle / Venue / Authors
2026 J jnl
Graph neural networks uncover structure and functions underlying the activity of simulated neural assemblies.
CoRR
Cédric Allier, Larissa Heinrich, Magdalena C. Schneider, Stephan Saalfeld
2025 J jnl
DeepPD: Joint Phase and Object Estimation from Phase Diversity with Neural Calibration of a Deformable Mirror.
CoRR
Magdalena C. Schneider, Courtney Johnson, Cédric Allier, Larissa Heinrich, Diane Adjavon, Joren Husic, Patrick La Riviere, Stephan Saalfeld, Hari Shroff
2024 J jnl
Decomposing heterogeneous dynamical systems with graph neural networks.
CoRR
Cédric Allier, Magdalena C. Schneider, Michael Innerberger, Larissa Heinrich, John A. Bogovic, Stephan Saalfeld
2024 J jnl
SciJava Ops: An Improved Algorithms Framework for Fiji and Beyond.
CoRR
Gabriel J. Selzer, Curtis T. Rueden, Mark C. Hiner, Edward L. Evans, David Kolb, Marcel Wiedenmann, Christian Birkhold, Tim-Oliver Buchholz, Stefan Helfrich, Brian Northan, Alison E. Walter, Johannes E. Schindelin, Tobias Pietzsch, Stephan Saalfeld, Michael R. Berthold, Kevin W. Eliceiri
2024 J jnl
SciJava Ops: an improved algorithms framework for Fiji and beyond.
Frontiers Bioinform.
Gabriel J. Selzer, Curtis T. Rueden, Mark C. Hiner, Edward L. Evans, David Kolb, Marcel Wiedenmann, Christian Birkhold, Tim-Oliver Buchholz, Stefan Helfrich, Brian Northan, Alison E. Walter, Johannes E. Schindelin, Tobias Pietzsch, Stephan Saalfeld, Michael R. Berthold, Kevin W. Eliceiri
2019 J jnl
Large Scale Image Segmentation with Structured Loss Based Deep Learning for Connectome Reconstruction.
IEEE Trans. Pattern Anal. Mach. Intell.
Jan Funke, Fabian Tschopp, William Grisaitis, Arlo Sheridan, Chandan Singh, Stephan Saalfeld, Srinivas C. Turaga
2018 J jnl
Joint Deformable Registration of Large EM Image Volumes: A Matrix Solver Approach.
CoRR
Khaled Khairy, Gennady Denisov, Stephan Saalfeld
2018 J jnl
Synaptic Cleft Segmentation in Non-Isotropic Volume Electron Microscopy of the Complete Drosophila Brain.
CoRR
Larissa Heinrich, Jan Funke, Constantin Pape, Juan Nunez-Iglesias, Stephan Saalfeld
2018 — conf
Synaptic Cleft Segmentation in Non-isotropic Volume Electron Microscopy of the Complete Drosophila Brain.
MICCAI (2)
Larissa Heinrich, Jan Funke, Constantin Pape, Juan Nunez-Iglesias, Stephan Saalfeld
2018 — conf
The candidate multi-cut for cell segmentation.
ISBI
Jan Funke, Chong Zhang, Tobias Pietzsch, Miguel Ángel González Ballester, Stephan Saalfeld
2017 J jnl
A Deep Structured Learning Approach Towards Automating Connectome Reconstruction from 3D Electron Micrographs.
CoRR
Jan Funke, Fabian Tschopp, William Grisaitis, Arlo Sheridan, Chandan Singh, Stephan Saalfeld, Srinivas C. Turaga
2017 J jnl
Deep Learning for Isotropic Super-Resolution from Non-Isotropic 3D Electron Microscopy.
CoRR
Larissa Heinrich, John A. Bogovic, Stephan Saalfeld
2017 — conf
Deep Learning for Isotropic Super-Resolution from Non-isotropic 3D Electron Microscopy.
MICCAI (2)
Larissa Heinrich, John A. Bogovic, Stephan Saalfeld
2017 J jnl
Image-based correction of continuous and discontinuous non-planar axial distortion in serial section microscopy.
Bioinform.
Philipp Hanslovsky, John A. Bogovic, Stephan Saalfeld
2017 J jnl
PreMosa: extracting 2D surfaces from 3D microscopy mosaics.
Bioinform.
Corinna Blasse, Stephan Saalfeld, Raphaël Etournay, Andreas Sagner, Suzanne Eaton, Eugene W. Myers
2017 J jnl
The Candidate Multi-Cut for Cell Segmentation.
CoRR
Jan Funke, Chong Zhang, Tobias Pietzsch, Stephan Saalfeld
2017 J jnl
Whole-brain serial-section electron microscopy in larval zebrafish.
Nat.
David Grant Colburn Hildebrand, Marcelo Cicconet, Russel Miguel Torres, Woohyuk Choi, Tran Minh Quan, Jungmin Moon, Arthur W. Wetzel, Andrew Scott Champion, Brett J. Graham, Owen Randlett, George S. Plummer, Ruben Portugues, Isaac Henry Bianco, Stephan Saalfeld, Alexander D. Baden, Kunal Lillaney, Randal C. Burns, Joshua T. Vogelstein, Alexander Schier, Wei-Chung Allen Lee, Won-Ki Jeong, Jeff William Lichtman, Florian Engert
2016 — conf
Robust registration of calcium images by learned contrast synthesis.
ISBI
John A. Bogovic, Philipp Hanslovsky, Allan Wong, Stephan Saalfeld
2015 J jnl
Image based compensation for thickness variation in microscopy section series.
CoRR
Philipp Hanslovsky, John A. Bogovic, C. Shan Xu, Kenneth J. Hayworth, Zhiyuan Lu, Harald F. Hess, Stephan Saalfeld
2015 — conf
Post-acquisition image based compensation for thickness variation in microscopy section series.
ISBI
Philipp Hanslovsky, John A. Bogovic, Stephan Saalfeld
2015 J jnl
Robust Registration of Calcium Images by Learned Contrast Synthesis.
CoRR
John A. Bogovic, Philipp Hanslovsky, Allan Wong, Stephan Saalfeld
2014 J jnl
BigDataViewer: Interactive Visualization and Image Processing for Terabyte Data Sets.
CoRR
Tobias Pietzsch, Stephan Saalfeld, Stephan Preibisch, Pavel Tomancak
2014 J jnl
Post-acquisition image based compensation for thickness variation in microscopy section series.
CoRR
Philipp Hanslovsky, John A. Bogovic, Stephan Saalfeld
2013 J jnl
ImgLib2 - generic image processing in Java.
Bioinform.
Tobias Pietzsch, Stephan Preibisch, Pavel Tomancak, Stephan Saalfeld
2012 J jnl
ImgLib2 - generic image processing in Java.
Bioinform.
Tobias Pietzsch, Stephan Preibisch, Pavel Tomancak, Stephan Saalfeld
2010 J jnl
As-rigid-as-possible mosaicking and serial section registration of large ssTEM datasets.
Bioinform.
Stephan Saalfeld, Albert Cardona, Volker Hartenstein, Pavel Tomancak
2009 B conf
Bead-based mosaicing of single plane illumination microscopy images using geometric local descriptor matching.
Image Processing
Stephan Preibisch, Stephan Saalfeld, Torsten Rohlfing, Pavel Tomancak
2009 J jnl
CATMAID: collaborative annotation toolkit for massive amounts of image data.
Bioinform.
Stephan Saalfeld, Albert Cardona, Volker Hartenstein, Pavel Tomancak
2009 J jnl
Globally optimal stitching of tiled 3D microscopic image acquisitions.
Bioinform.
Stephan Preibisch, Stephan Saalfeld, Pavel Tomancak