no code implementations • 7 May 2018 • Larissa Heinrich, Jan Funke, Constantin Pape, Juan Nunez-Iglesias, Stephan Saalfeld
Neural circuit reconstruction at single synapse resolution is increasingly recognized as crucially important to decipher the function of biological nervous systems.
1 code implementation • 26 Apr 2018 • Khaled Khairy, Gennady Denisov, Stephan Saalfeld
Large electron microscopy image datasets for connectomics are typically composed of thousands to millions of partially overlapping two-dimensional images (tiles), which must be registered into a coherent volume prior to further analysis.
1 code implementation • IEEE Transactions on Pattern Analysis and Machine Intelligence 2018 • Jan Funke, Fabian David Tschopp, William Grisaitis, Arlo Sheridan, Chandan Singh, Stephan Saalfeld, Srinivas C. Turaga
Our extension consists of two parts: First, we present a quasi-linear method to compute the loss gradient, improving over the original quadratic algorithm.
Ranked #1 on Brain Image Segmentation on FIB-25 Synaptic Sites
no code implementations • 4 Jul 2017 • Jan Funke, Chong Zhang, Tobias Pietzsch, Stephan Saalfeld
Two successful approaches for the segmentation of biomedical images are (1) the selection of segment candidates from a merge-tree, and (2) the clustering of small superpixels by solving a Multi-Cut problem.
no code implementations • 9 Jun 2017 • Larissa Heinrich, John A. Bogovic, Stephan Saalfeld
The most sophisticated existing methods to generate 3D isotropic super-resolution (SR) from non-isotropic electron microscopy (EM) are based on learned dictionaries.
2 code implementations • 3 Nov 2015 • Philipp Hanslovsky, John A. Bogovic, Stephan Saalfeld
In serial section microscopy, the axial dimension of the volume is sampled by physically removing thin sections from the embedded specimen and subsequently imaging either the block-face or the section series.
1 code implementation • 3 Nov 2015 • John A. Bogovic, Philipp Hanslovsky, Allan Wong, Stephan Saalfeld
Multi-modal image registration is a challenging task that is vital to fuse complementary signals for subsequent analyses.
2 code implementations • 25 Nov 2014 • Philipp Hanslovsky, John A. Bogovic, Stephan Saalfeld
Serial section Microscopy is an established method for volumetric anatomy reconstruction.