Towards digital representation of Drosophila embryogenesis. - Stephan Preibisch; Radoslaw Ejsmont; Torsten Rohlfing; Pavel Tomancak (ISBI, 2008)

Mosaicing of single plane illumination microscopy images using groupwise registration and fast content-based image fusion. - Stephan Preibisch; Torsten Rohlfing; Michael P. Hasak; Pavel Tomancak (Image Processing, 2008)

Bead-based mosaicing of single plane illumination microscopy images using geometric local descriptor matching. - Stephan Preibisch; Stephan Saalfeld; Torsten Rohlfing; Pavel Tomancak (Image Processing, 2009)

Globally optimal stitching of tiled 3D microscopic image acquisitions. - Stephan Preibisch; Stephan Saalfeld; Pavel Tomancak (Bioinform., 2009)

CATMAID: collaborative annotation toolkit for massive amounts of image data. - Stephan Saalfeld; Albert Cardona; Volker Hartenstein; Pavel Tomancak (Bioinform., 2009)

An alignment-free method to identify candidate orthologous enhancers in multiple Drosophila genomes. - Arunachalam Manonmani; Karthik Jayasurya; Pavel Tomancak; Uwe Ohler (Bioinform., 2010)

As-rigid-as-possible mosaicking and serial section registration of large ssTEM datasets. - Stephan Saalfeld; Albert Cardona; Volker Hartenstein; Pavel Tomancak (Bioinform., 2010)

linkcomm: an R package for the generation, visualization, and analysis of link communities in networks of arbitrary size and type. - Alex T. Kalinka; Pavel Tomancak (Bioinform., 2011)

ImgLib2 - generic image processing in Java. - Tobias Pietzsch; Stephan Preibisch; Pavel Tomancak; Stephan Saalfeld (Bioinform., 2012)

BigDataViewer: Interactive Visualization and Image Processing for Terabyte Data Sets. - Tobias Pietzsch; Stephan Saalfeld; Stephan Preibisch; Pavel Tomancak (CoRR, 2014)

Exploring Time-dependent Scientific Data Using Spatially Aware Mobiles and Large Displays. - Hendrik Sollich; Ulrich von Zadow; Tobias Pietzsch; Pavel Tomancak; Raimund Dachselt (ISS, 2016)

An automated workflow for parallel processing of large multiview SPIM recordings. - Christopher Schmied; Peter Steinbach; Tobias Pietzsch; Stephan Preibisch; Pavel Tomancak (Bioinform., 2016)

SciJava Interface for Parallel Execution in the ImageJ Ecosystem. - Michal Krumnikl; Petr Bainar; Jana Klímová; Jan Kozuszník; Pavel Moravec 001; Václav Svaton; Pavel Tomancák (CISIM, 2018)

HPC-as-a-Service via HEAppE Platform. - Vaclav Svaton; Jan Martinovic; Jan Krenek; Thomas Esch; Pavel Tomancak (CISIS, 2019)

scenery: Flexible Virtual Reality Visualization on the Java VM. - Ulrik Günther; Tobias Pietzsch; Aryaman Gupta; Kyle I. S. Harrington; Pavel Tomancak; Stefan Gumhold; Ivo F. Sbalzarini (IEEE VIS (Short Papers), 2019)

SPIM workflow manager for HPC. - Jan Kozuszník; Petr Bainar; Jana Klímová; Michal Krumnikl; Pavel Moravec 001; Václav Svaton; Pavel Tomancák (Bioinform., 2019)

scenery - Flexible Virtual Reality Visualisation on the Java VM. - Ulrik Günther; Tobias Pietzsch; Aryaman Gupta; Kyle I. S. Harrington; Pavel Tomancak; Stefan Gumhold; Ivo F. Sbalzarini (CoRR, 2019)

Registration of Multi-modal Volumetric Images by Establishing Cell Correspondence. - Manan Lalit; Mette Handberg-Thorsager; Yu-Wen Hsieh; Florian Jug; Pavel Tomancak (ECCV Workshops (1), 2020)

Leveraging Self-supervised Denoising for Image Segmentation. - Mangal Prakash; Tim-Oliver Buchholz; Manan Lalit; Pavel Tomancak; Florian Jug; Alexander Krull (ISBI, 2020)

Fully Unsupervised Probabilistic Noise2Void. - Mangal Prakash; Manan Lalit; Pavel Tomancak; Alexander Krull; Florian Jug (ISBI, 2020)

Embedding-based Instance Segmentation in Microscopy. - Manan Lalit; Pavel Tomancak; Florian Jug (MIDL, 2021)

Embedding-based Instance Segmentation of Microscopy Images. - Manan Lalit; Pavel Tomancak; Florian Jug (CoRR, 2021)

LABKIT: Labeling and Segmentation Toolkit for Big Image Data. - Matthias Arzt; Joran Deschamps; Christopher Schmied; Tobias Pietzsch; Deborah Schmidt; Pavel Tomancak; Robert Haase 001; Florian Jug (Frontiers Comput. Sci., 2022)

EmbedSeg: Embedding-based Instance Segmentation for Biomedical Microscopy Data. - Manan Lalit; Pavel Tomancak; Florian Jug (Medical Image Anal., 2022)