TY  - GEN
T1  - Net, skin and flatten, ImageJ plugin tool for extracting surface profiles from curved 3D objects
AU  - Wada, Housei
AU  - Hayashi, Shigeo
DO  - 10.17912/micropub.biology.000292
UR  - http://beta.micropublication.org/journals/biology/micropub-biology-000292/
AB  - Optical cross-sectioning of whole embryos with advanced fluorescent microscopes such as confocal laser scanning microscopes or light-sheet microscopes has been extensively used in developmental biology. The maximum projection of markers localized to the object surface is widely used to reconstruct surface profiles (Erguvan et al., 2019). However, this technique is effective only to the surface parallel to the plane of sections, and area profiles of diagonal surfaces, such as the margin of embryos, are under-represented. Tools for tracing curved surfaces have been developed (de Reuille et al., 2015; Heemskerk & Streichan, 2015; Viktorinová et al., 2019), but their usage is not easy for novice users. A simple and easy-to-use tool with basic surface extraction function for users of the most widely used image analysis platform, ImageJ (https://imagej.nih.gov) is anticipated. For this reason, we developed a highly versatile ImageJ plugin “SheetMeshProjection” for extracting curved surfaces with user-defined thickness and creating expanded 2D images.
PY  - 2020
JO  - microPublication Biology
ER  -