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Ixytocin / Specialised-CZI-Stitcher

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A specialized batch-processing pipeline for Zeiss CZI files. Optimized for ApoTome & Brain sections. Fixes hyperstack dimensions, recovers LUTs, and removes shading via rolling-ball pre-processing.

metadata bioinformatics imagej fiji mit-license batch-script image-stitching microscopy jython life-sciences whole-slide-imaging czi zeisshack zeiss-czi-files microscopy-data bioimage vibe-coding
  • Updated Dec 29, 2025
  • Roff

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