I have grayscale .tif images which i have stored in a 3d array(volume0. I have binarized the 3D array. I wish to calculate the dimensions of dark color object in the 3D array.

I have grayscale .tif images which i have stored in a 3d array(volume). I have binarized the 3D array. I wish to calculate the dimensions of dark color objects in the 3D array. The dimension which i need are:

Location, Volume, Z-projection. I tried to use region props but it identifies a lot of small objects whivch are noise. I wish to only consider objects whose Z projection is above a certain value.

[Vikas Verma]

@Image Analyst @Rik Can you please guide me how to do that...

[DGM]

You should be able to use regionprops3() to get the 'volume', 'centroid' and 'image' properties. Take the 'image' property (a small volumetric image of the object itself), project it using any(...,3), and then calculate its area. I'm assuming that you're after the area of the projection.

[Vikas Verma]

i am sharing one slice of the original image. i am facing following problems in binarizing:

1. There is noise at the circumference as you can see, can you guide me how to remove the noise.
2. i wish to caluclate the size of defects which you can see as black spots in the size. i want to measure the volume and Z-projection area.