Fiji tool for batch stitching of ACQUIFER Imaging Machine data
| Main Author: | Jochen Gehrig |
|---|---|
| Format: | info software Journal |
| Terbitan: |
, 2020
|
| Subjects: | |
| Online Access: |
https://zenodo.org/record/3631724 |
Daftar Isi:
- A Fiji macro toolset for batch stitching of overlapping tiled data from the ACQUIFER Imaging Machine (IM04). Two methods are implemented: - 3D stitching: generates multilayer tiffs for each channel of well-associated subposition and stitches them (recommended for any data with N(z-slices) > 2). - slice-by-slice: stitches z-slices of each channel from different well-associated subposition individually (recommended for 2D data or thin z-stacks (N(z-slices) = 2)). The macro extracts meta-information about XYZ coordinates from file name tokens, generates tile configurations and carries out Image Stitching (https://imagej.net/Image_Stitching) in Fiji. It depends on the FIji plugin published in S. Preibisch, S. Saalfeld, P. Tomancak (2009) "Globally optimal stitching of tiled 3D microscopic image acquisitions", Bioinformatics, 25(11):1463-1465.