Julia counterparts to slice and contourslice in Matlab

sdanisch · December 3, 2016, 4:53pm

Yeah you can use GLVisualize it

Code:

SimonDanisch/GLPlot.jl/blob/master/example/volume_slice.jl

using GLPlot, GLVisualize, GLAbstraction, Colors, GeometryTypes, Plots, FileIO
using Reactive, GLWindow, NIfTI
import Quaternions: qrotation
# load a volume
vol = niread(joinpath(homedir(), "Desktop", "lesson", "volume.nii")).raw;
vol = Float32.(vol ./ maximum(vol));

# prepare the slices
ranges = ntuple(i-> linspace(-2f0, 2f0, size(vol, i)), 3)
slices = ntuple(3) do i
    range_s = play_widget(1:size(vol, i))
    slice = map(range_s) do j
        s = vol[ifelse(i == 1, j, :), ifelse(i == 2, j, :) , ifelse(i == 3, j, :)]
        reinterpret(Intensity{1, Float32}, s)
    end
    slice, range_s
end

rotations = (
    Mat4f0(qrotation(unit(Vec3f0, 1), Float32(pi/2))),

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Sorry for any inconveniences, I just right now fixed up GLPlot to work with the newest GLVisualize, so it might still act buggy.
It would be possible to add this code sample as a visualization style.

IJulia integration is not great right now, since the interactivity will mostly be missing
It’s implemented for the Plots.jl package, since it is quite static to begin with, but not for GLVisualize/GLPlot, since these packages are pretty meaningless without interaction. But in principle it’s also straight forward to grab the image from GLVisualize/GLPlot and display it inlined in the notebook.