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Updated: Jan 21, 2026

Imaging Cleared Embryonic and Postnatal Hearts at Single-cell Resolution
Published on: October 7, 2016
BigStitcher: reconstructing high-resolution image datasets of cleared and expanded samples
David Hörl1,2, Fabio Rojas Rusak3, Friedrich Preusser2
1Department of Biology II, Ludwig-Maximilians-Universität München, Munich, Germany.
None:
Light-sheet imaging of cleared and expanded samples creates terabyte-sized datasets that consist of many unaligned three-dimensional image tiles, which must be reconstructed before analysis. We developed the BigStitcher software to address this challenge. BigStitcher enables interactive visualization, fast and precise alignment, spatially resolved quality estimation, real-time fusion and deconvolution of dual-illumination, multitile, multiview datasets. The software also compensates for optical effects, thereby improving accuracy and enabling subsequent biological analysis.
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