baby.volume

Volume estimation utilities

Notes: I don’t have statistics on ranges of radii for each of the knots in the radial spline representation, but we regularly extract the average of these radii for each cell. So, depending on camera/lens, we get:

  • 60x evolve: mean radii of 2-14 pixels (and measured areas of 30-750

pixels^2) * 60x prime95b: mean radii of 3-24 pixels (and measured areas of 60-2000 pixels^2)

values.

In terms of the current volume estimation method, it’s currently only implemented in the AnalysisToolbox repository, but it’s super simple:

mVol = 4/3*pi*sqrt(mArea/pi).^3

where mArea is simply the sum of pixels for that cell.

Functions

capped_cylinder(x, y)

circle_outline(r)

conical(outline[, debug])

ellipse_perimeter(x, y)

improved_uos(outline[, shape, debug])

my_ball(radius)

Generates a ball-shaped structuring element.

plot_voxels(voxels)

union_of_spheres(outline[, shape, debug])

volume(outline[, method])

volume_of_sphere(radius)