MosaicExplorerJ: Interactive stitching of terabyte-size tiled datasets from lightsheet microscopy [version 1; peer review: 2 approved with reservations]

MosaicExplorerJ: Interactive stitching of terabyte-size tiled datasets from lightsheet microscopy [version 1; peer review: 2 approved with reservations]

We introduce MosaicExplorerJ, an ImageJ macro to stitch 3D tiles from terabyte-size microscopy datasets. As opposed to existing software, stitching does not require any prior information on the actual positions of the tiles, sample fiducials, or conversion of raw TIFF images, and the stitched images...

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Bibliographic Details
Published in:F1000 research Vol. 9; p. 1308
Main Authors: Tosi, Sébastien, Bardia, Lídia, Barallobre, Maria Jose, Muñoz-Barrutia, Arrate, Soto-Montenegro, María Luisa, Colombelli, Julien
Format: Journal Article
Language:English
Published: England 2020
Subjects:
Image Processing, Computer-Assisted
Microscopy
Software
ImageJ
Lighsheet microscopy
Tiled scan
Mosaic
3D stitching
Lightsheet microscopy
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Description
Summary:We introduce MosaicExplorerJ, an ImageJ macro to stitch 3D tiles from terabyte-size microscopy datasets. As opposed to existing software, stitching does not require any prior information on the actual positions of the tiles, sample fiducials, or conversion of raw TIFF images, and the stitched images can be explored instantly. MosaicExplorerJ was specifically designed to process lightsheet microscopy datasets from optically cleared samples. It can handle multiple fluorescence channels, dual-side lightsheet illumination and dual-side camera detection.
ISSN:2046-1402
2046-1402
DOI:10.12688/f1000research.27112.1