Light-bead microscopy

Scroll to zoom, drag to pan — all three panels move together. Click a cell to select it. Arrow keys step time (← →) and plane (↑ ↓); 0 resets the zoom.

Rigid shift applied to each volume, in voxels. The marker follows the scrubber. Blocked non-rigid shifts are estimated on top of these and are not plotted.

Neuropil-corrected fluorescence (F − 0.7 × Fneu) and the deconvolved trace (spks), as written by the pipeline. Every one of the 43,652 ROIs is selectable, but only 4,326 of them carry an exported trace — all 43,652 would be 227 MB. Those are drawn with a solid outline; the rest are faint. They are the brightest cell of each plane, then the second brightest of each plane, and so on, so every plane has some.

mov_sub is time-binned by the pipeline: one bin is 6 volumes. Each panel here averages 8 of those bins — 48 volumes — because a single bin of this recording is visually indistinguishable from noise. Both panels are averaged over the same window, so they show the same instant. One step of the time slider is 11.66 s, and the clip covers the first 292 s of the recording.