alignment.geometry.histology_track

alignment.geometry.histology_track(xyz_m, brain_atlas)

[L, 3] the IBL histology track through xyz_m (m), top to bottom.

This is the track of the alignment GUI (:class:ibllib.pipes.ephys_alignment.EphysAlignment): lines fitted to the first and last quarter of the points (at least 4) extend it up to the top of the atlas and down to 200 µm below the brain, sampled every 10 µm. xyz_m (histology picks, or channel positions) may be in either order: the GUI fits the top line to the first points, so points given bottom first are reversed.