Table 3.

Tools for registering multimodality 2D microscopy images—scientific references.

AIBLROI	Not available.
BigWarp	Bogovic, J. A., Hanslovsky, P., Wong, A., & Saalfeld, S. (2016, April). Robust registration of calcium images by learned contrast synthesis. In 2016 IEEE 13th International Symposium on Biomedical Imaging (ISBI) (pp. 1123–1126). IEEE. [23]
Correlia	Rohde, F., BRAUMANN, U. D., & Schmidt, M. (2020). Correlia: an ImageJ plug-in to co-register and visualise multimodal correlative micrographs. Journal of Microscopy, 280(1), 3–11. [9]
ec-CLEM	Paul-Gilloteaux, P., Heiligenstein, X., Belle, M., Domart, M. C., Larijani, B., Collinson, L., … & Salamero, J. (2017). eC-CLEM: flexible multidimensional registration software for correlative microscopies. Nature methods, 14(2), 102–103. [25]
elastix	Klein, S., Staring, M., Murphy, K., Viergever, M. A., & Pluim, J. P. (2009). Elastix: a toolbox for intensity-based medical image registration. IEEE transactions on medical imaging, 29(1), 196–205. [8]
ITK	McCormick, M. M., Liu, X., Ibanez, L., Jomier, J., & Marion, C. (2014). ITK: enabling reproducible research and open science. Frontiers in neuroinformatics, 8, 13. [27]
LSAWSIFT	Not available.
RVSS	Not available.
StackReg	Thevenaz, P., Ruttimann, U. E., & Unser, M. (1998). A pyramid approach to subpixel registration based on intensity. IEEE transactions on image processing, 7(1), 27–41. [33]
TrakEM2	Cardona, A., Saalfeld, S., Schindelin, J., Arganda-Carreras, I., Preibisch, S., Longair, M., … & Douglas, R. J. (2012). TrakEM2 software for neural circuit reconstruction. PloS one, 7(6), e38011.
DS4H-IA	Piccinini, F., Duma, M.E. Tazzari, M., Pyun, J-C, Martinelli, G., Castellani, G., Carbonaro, A. (2022). DS4H Image Alignment: an user-friendly open-source ImageJ/Fiji plugin for aligning multimodality/IHC/IF 2D microscopy images. Submitted to Sensors.