BigStitcher: reconstructing high-resolution image datasets of cleared and expanded samples (original ) (raw ) References
Chung, K. et al. Nature 497 , 332–337 (2013).Article CAS Google Scholar
Chen, F., Tillberg, P. W. & Boyden, E. S. Science 347 , 543–548 (2015).Article CAS Google Scholar
Huisken, J., Swoger, J., Del Bene, F., Wittbrodt, J. & Stelzer, E. H. K. Science 305 , 1007–1009 (2004).Article CAS Google Scholar
Chhetri, R. K. et al. Nat. Methods 12 , 1171–1178 (2015).Article CAS Google Scholar
Huisken, J. & Stainier, D. Y. R. Opt. Lett. 32 , 2608–2610 (2007).Article Google Scholar
Tomer, R., Ye, L., Hsueh, B. & Deisseroth, K. Nat. Protoc. 9 , 1682–1697 (2014).Article CAS Google Scholar
Richardson, D. S. & Lichtman, J. W. Cell 162 , 246–257 (2015).Article CAS Google Scholar
Pietzsch, T., Saalfeld, S., Preibisch, S. & Tomancak, P. Nat. Methods 12 , 481–483 (2015).Article CAS Google Scholar
Linkert, M. et al. J. Cell Biol. 189 , 777–782 (2010).Article CAS Google Scholar
Pietzsch, T., Preibisch, S., Tomancák, P. & Saalfeld, S. Bioinformatics 28 , 3009–3011 (2012).Article CAS Google Scholar
Kuglin, C. D. & Hines, D. C. in Proc. IEEE International Conference on Cybernetics and Society 163–165 (IEEE, 1975)
Preibisch, S., Saalfeld, S. & Tomancák, P. Bioinformatics 25 , 1463–1465 (2009).Article CAS Google Scholar
Emmenlauer, M. et al. J. Microsc. 233 , 42–60 (2009).Article CAS Google Scholar
Chalfoun, J. et al. Sci. Rep. 7 , 4988 (2017).Article Google Scholar
Saalfeld, S., Fetter, R., Cardona, A. & Tomancák, P. Nat. Methods 9 , 717–720 (2012).Article CAS Google Scholar
Bria, A. & Ianello, G. BMC Bioinformatics 13 , 316 (2012).Article Google Scholar
Besl, P. J. & McKay, N. D. IEEE Trans. Pattern Anal. Mach. Intell. 14 , 239–256 (1992).Article Google Scholar
Migliori, B. et al. BMC Biol. 16 , 57 (2018).Article Google Scholar
Schaefer, S., McPhail, T. & Warren, J. ACM Trans. Graph. 25 , 533–540 (2006).Article Google Scholar
Ryan, D. P. et al. Nat. Commun. 8 , 612 (2017).Article Google Scholar
Royer, L. A. et al. Adaptive light-sheet microscopy for long-term, high-resolution imaging in living organisms. Nat. Biotechnol. 34 , 1267–1278 (2016).Article CAS Google Scholar
Nieuwenhuizen, R. P. J. et al. Nat. Methods 10 , 557–562 (2013).Article CAS Google Scholar
Preibisch, S. et al. Nat. Methods 11 , 645–648 (2014).Article CAS Google Scholar
Gao, R. et al. Science 363 , eaau8302 (2019).Article Google Scholar
Schindelin, J. et al. Nat. Methods 9 , 676–682 (2012).Article CAS Google Scholar
Sakkou, M. et al. Cell Metab. 5 , 450–463 (2007).Article CAS Google Scholar
Nguyen, J. P., Linder, A. N., Plummer, G. S., Shaevitz, J. W. & Leifer, A. M. PLoS Comput. Biol. 13 , e1005517 (2017).Article Google Scholar
Karp, X. in WormBook (ed. The C. elegans Research Community, 2016); https://doi.org/10.1895/wormbook.1.180.1
Pfeiffer, D. B. et al. Proc. Natl Acad. Sci. USA 105 , 9715–9720 (2008).Article CAS Google Scholar
Tillberg, P. W. et al. Nat. Biotechnol. 34 , 987–992 (2016).Article CAS Google Scholar
Preibisch, S., Saalfeld, S., Schindelin, J. & Tomancák, P. Nat. Methods 7 , 418–419 (2010).Article CAS Google Scholar
Smith, C. S. et al. J. Cell Biol. 209 , 609–619 (2015).Article CAS Google Scholar
Lowe, D. G. Int. J. Comput. Vis. 60 , 91–110 (2004).Article Google Scholar
Matsuda, A., Schermelleh, L., Hirano, Y., Haraguchi, T. & Hiraoka, Y. Sci. Rep. 8 , 7583 (2018).Article Google Scholar
Weigert, M., Subramanian, K., Bundschuh, S. T., Myers, E. W. & Kreysing, M. PLoS Comput. Biol. 14 , e1006079 (2018).Article Google Scholar
Fischler, M. A. & Bolles, R. C. Commun. ACM 24 , 381–395 (1981).Article Google Scholar
Cleveland, W. S. J. Am. Stat. Assoc. 74 , 829–836 (1979).Article Google Scholar
Preibisch, S., Rohlfing, T., Hasak, M. P. & Tomancák, P. in Proc. of the International Society for Optics and Photonics, Medical Imaging (eds. Reinhardt, J. M. & Pluim, J. P. W.) (SPIE, 2008).
Blasse, C. et al. Bioinformatics 33 , 2563–2569 (2017).Article CAS Google Scholar
Schmied, C., Steinbach, P., Pietzsch, T., Preibisch, S. & Tomancák, P. Bioinformatics 32 , 1112–1114 (2016).Article CAS Google Scholar
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