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BiDiFuse : a FIJI plugin for fusing bi-directionally recorded microscopic image volumes

(2016) BIOINFORMATICS. 32(23). p.3691-3693
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Abstract
Deep tissue imaging is increasingly used for non-destructive interrogation of intact organs and small model organisms. An intuitive approach to increase the imaging depth by almost a factor of 2 is to record a sample from two sides and fuse both image stacks. However, imperfect three-dimensional alignment of both stacks presents a computational challenge. We have developed a FIJI plugin, called BiDiFuse, which merges bi-directionally recorded image stacks via 3D rigid transformations. The method is broadly applicable, considering it is compatible with all optical sectioning microscopes and it does not rely on fiducial markers for image registration.

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Citation

Please use this url to cite or link to this publication:

MLA
Detrez, Jan R et al. “BiDiFuse : a FIJI Plugin for Fusing Bi-directionally Recorded Microscopic Image Volumes.” BIOINFORMATICS 32.23 (2016): 3691–3693. Print.
APA
Detrez, J. R., Vanderwinden, J.-M., Barbier, M., Verschuuren, M., Nuydens, R., Langlois, X., Timmermans, J.-P., et al. (2016). BiDiFuse : a FIJI plugin for fusing bi-directionally recorded microscopic image volumes. BIOINFORMATICS, 32(23), 3691–3693.
Chicago author-date
Detrez, Jan R, Jean-Marie Vanderwinden, Michaël Barbier, Marlies Verschuuren, Rony Nuydens, Xavier Langlois, Jean-Pierre Timmermans, and Winnok De Vos. 2016. “BiDiFuse : a FIJI Plugin for Fusing Bi-directionally Recorded Microscopic Image Volumes.” Bioinformatics 32 (23): 3691–3693.
Chicago author-date (all authors)
Detrez, Jan R, Jean-Marie Vanderwinden, Michaël Barbier, Marlies Verschuuren, Rony Nuydens, Xavier Langlois, Jean-Pierre Timmermans, and Winnok De Vos. 2016. “BiDiFuse : a FIJI Plugin for Fusing Bi-directionally Recorded Microscopic Image Volumes.” Bioinformatics 32 (23): 3691–3693.
Vancouver
1.
Detrez JR, Vanderwinden J-M, Barbier M, Verschuuren M, Nuydens R, Langlois X, et al. BiDiFuse : a FIJI plugin for fusing bi-directionally recorded microscopic image volumes. BIOINFORMATICS. 2016;32(23):3691–3.
IEEE
[1]
J. R. Detrez et al., “BiDiFuse : a FIJI plugin for fusing bi-directionally recorded microscopic image volumes,” BIOINFORMATICS, vol. 32, no. 23, pp. 3691–3693, 2016.
@article{8525134,
  abstract     = {Deep tissue imaging is increasingly used for non-destructive interrogation of intact organs and small model organisms. An intuitive approach to increase the imaging depth by almost a factor of 2 is to record a sample from two sides and fuse both image stacks. However, imperfect three-dimensional alignment of both stacks presents a computational challenge. We have developed a FIJI plugin, called BiDiFuse, which merges bi-directionally recorded image stacks via 3D rigid transformations. The method is broadly applicable, considering it is compatible with all optical sectioning microscopes and it does not rely on fiducial markers for image registration.},
  author       = {Detrez, Jan R and Vanderwinden, Jean-Marie and Barbier, Michaël and Verschuuren, Marlies and Nuydens, Rony and Langlois, Xavier and Timmermans, Jean-Pierre and De Vos, Winnok},
  issn         = {1367-4803},
  journal      = {BIOINFORMATICS},
  language     = {eng},
  number       = {23},
  pages        = {3691--3693},
  title        = {BiDiFuse : a FIJI plugin for fusing bi-directionally recorded microscopic image volumes},
  url          = {http://dx.doi.org/10.1093/bioinformatics/btw515},
  volume       = {32},
  year         = {2016},
}

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