Globally optimal stitching of tiled 3D microscopic image acquisitions
Citations
43,540 citations
4,093 citations
2,156 citations
Cites methods from "Globally optimal stitching of tiled..."
...References for plugins shown: TrackMate [67], MaMuT [150], Multiview Reconstruction [70, 71], MotherMachine Analyzer (MoMA) [151, 152], Sholl Analysis [74], Kymograph Builder [153], Z-Spacing Correction [154], Trainable Weka Segmentation [155], Pendent Drop [156], SciView [157], BigDataViewer [66], Image Stitching [158], Coloc 2 [159], MorphoLibJ [100]....
[...]
2,081 citations
Cites background from "Globally optimal stitching of tiled..."
...The Stitching plugin (Preibisch et al., 2009) is a popular ImageJ option for combining such image collections into a single, cohesive output (see Fig....
[...]
1,070 citations
Cites background from "Globally optimal stitching of tiled..."
...…of numerous plane images still has issues such as unavoidable errors of mechanical stage accuracy, the need for additional calculations to correct for optical distortion and rotation for reconstitution, or the accumulation of huge data sets (Emmenlauer et al., 2009; Preibisch et al., 2009)....
[...]
...This is particularly important for comparing multiple 3D whole-brain images with single-cell resolution because the assembly of numerous plane images still has issues such as unavoidable errors of mechanical stage accuracy, the need for additional calculations to correct for optical distortion and rotation for reconstitution, or the accumulation of huge data sets (Emmenlauer et al., 2009; Preibisch et al., 2009)....
[...]
References
2,550 citations
Additional excerpts
...averaging, α=1 linear blending (Brown and Lowe, 2007), α>1 non-linear blending)....
[...]
1,204 citations
"Globally optimal stitching of tiled..." refers background or methods in this paper
...The PCM results in a set of translations P= ( pAB :A,B∈V ) with V being the set of all tiles, and each pAB mapping tile A to an overlapping tile B maximizing the pairwise alignment quality....
[...]
...The method uses phase ∗To whom correspondence should be addressed. correlation (Kuglin and Hines, 1975) to find the translation between all image pairs and registers multi-tile acquisitions globally minimizing all pairwise registration errors....
[...]
...1 Phase correlation and fast Fourier transform We use the Fourier transform (F )-based phase correlation method (PCM) (Kuglin and Hines, 1975) to compute translational offsets between images....
[...]
...correlation (Kuglin and Hines, 1975) to find the translation between all image pairs and registers multi-tile acquisitions globally minimizing all pairwise registration errors....
[...]
...We use the Fourier transform (F )-based phase correlation method (PCM) (Kuglin and Hines, 1975) to compute translational offsets between images....
[...]
417 citations
"Globally optimal stitching of tiled..." refers methods in this paper
...Prior to performing the PFFFT the input images have to be extended to a size supported by that algorithm....
[...]
...The resulting images are zero-padded to dimensions supported by the PFFFT algorithm....
[...]
...The Fourier transform F is computed using the multi-threaded Prime Factor Fast Fourier Transform (PFFFT) (Good, 1958)....
[...]