TWINKLE: An open-source two-photon microscope for teaching and research
Fig 7
Example calcium imaging in transgenic Zebrafish (Danio rerio).
A) 3D rendering of a 300 μm deep volumetric image of a five day old Zebrafish larva with Fiji [36]. B) Dorsal slice through the same animal and two zoom views down to cellular scale. C) Color-coded ≈ 10 min of time-averaged volumetric imaging data of three 20 μm-spaced planes using the piezoelectric collar attached to the objective. The layers are colored in red/green/blue. No motion correction was applied. Notice the blurry averages, caused by motion of the fish. D) Running Suite2p on the data in C produces numerous regions of interest (ROIs) with complex Calcium dynamics. Left: Suite2p applies motion correction, resulting in a much crisper average picture. Right: Time series of a few ROIs over 10 min.