Stephan Preibisch
Director Of Scientific Computing Software at Howard Hughes Medical Institute
Ashburn, Virginia, United States
Summary
👤
Senior🎓
Top SchoolStephan Preibisch is Director of Scientific Computing Software at HHMI Janelia with 18 years of experience building image-analysis and reconstruction pipelines for large-scale light and electron microscopy. He leads teams that bridge computer science and biology, developing open-source tools (Fiji, ImgLib2, BigDataViewer, BigStitcher, RS-FISH, STIM) used by the imaging community to stitch, register and analyze multi-modal datasets. His work combines algorithm design, scalable software engineering, and hands-on microscopy collaborations across Janelia labs and external partners like FlyEM and CellMap. Previously he ran an independent research group at the Max Delbrück Center focused on lightsheet imaging, spatial transcriptomics and developmental regulation in C. elegans. Stephan champions Open Science, co-founded Janelia’s OSSI, and contributes core fixes and features to the widely-used Fiji distribution, improving image stitching and multi-series spatial handling. He is equally fluent in kernel-level image algorithms and experimental design, a rare mix that lets him turn biological questions into robust computational workflows.
18 years of coding experience
Diploma (Master of Science equivalent), Computer Science, Diploma (Master of Science equivalent), Computer Science at Technische Universität DresdenPhD, Computer Science, Biology, PhD, Computer Science, Biology at Max Planck Institute of Molecular Cell Biology and Genetics
English, German
Github Skills (6)
javas10
image-processing10
java10
develop9
algorithm9
algorithms9
Programming languages (7)
Github contributions (5)
fiji/fiji
Jul 2009 - Jan 2014
A "batteries-included" distribution of ImageJ :battery:
Role in this project:
Back-end Developer
Back-end DeveloperContributions:526 commits, 11 comments in 4 years 6 months
Contributions summary:Stephan primarily worked on bug fixes and implementing new features within the Fiji image processing software. Their contributions focused on improving the functionality of the image stitching capabilities, particularly in handling multi-series files with spatial coordinates. They modified several source files related to image processing, indicating a focus on improving core algorithms and the user interface.
batteries-includedbatteryimagejbatteriesdocker
StephanPreibisch/bigdataviewer-core
Feb 2015 - Oct 2024
ImgLib2-based viewer for registered SPIM stacks
Contributions:11 pushes, 1 branch in 9 years 10 months
spimimglib2viewerstacks
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