And I am looking to reconstruct them in a 3D model. Loading the data into Paraview, I am able to do so if I use a color map (enable Map Scalars & Ray Tracing), resulting in:
However, the color data is important. If I uncheck the Map Scalars on my original dataset, I get an error that I only have 3 channels, not 4 (RGB vs RGBA), when I append it with convert -alpha on or convert -alpha set, I don’t see anything. Finally I manged to get the original colors in by removing the black color with convert -alpha copy, which results in images like:
I assume you are volume rendering your last image (as you state). The. This is unexpected behavior. Here is an (old) tutorial I wrote up on controlling the opacity for volume rendering: https://www.paraview.org/Wiki/Volume_rendering_-_Fire. If that doesn’t work, try using Clip/ by Scalar, and remove all of your cells that are black. Then post another picture.
Thanks for the help Walter!
By playing with the color map points there does seem to change a bit, but either only the colors themselves, or the whole things disappears all together around one threshold.
The Clip with Scalar I applied, but I am not sure if it works as Paraview crashes before it shows anything