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tsehrhardt last won the day on June 20

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About tsehrhardt

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  1. I know! I just figured out how to create a dicom series in Slicer from the nrrd file. Mimics can read the dicom series, but I had to use Slicer to create the orthogonal views because that's where Mimics was getting hung up for me!
  2. I am running Slicer 4.5.0-1 with Windows 10. Is it possible you downloaded the wrong version for your system? Or I wonder if there's a security setting that is blocking the proper install..
  3. Hi Diogo, I have started working with microCT and can't get them in to Mimics. However, I have had great success with 3DSlicer. It's very slow with the tiff stack, but if I import the tiff stack to Fiji and save it as a .nrrd file, then Slicer reads it much faster. Terrie P.S. What version of Mimics are you using? I have 17 and 18 and they both seem to have a hard time with tiff stacks.
  4. Thanks Dr. Mike! I hope it was helpful!
  5. If there is a separation, you can click on Edit, Separate Shells in Meshmixer and it will split the model. Did you try uploading the subvolume .nrrd to democratiz3D?
  6. No problem! You need to go to All Modules, then Crop Volume, hit Crop and wait. Then you will see your slice windows change to the area you designated. When you go to Save, you will see that there is a second volume that says "subvolume". This is the cropped volume that you can save as .nrrd. This format can be reopened in Slicer or uploaded to the democratiz3d app to get a printable model.
  7. Ok, you need to "open" the eye next to "Volume" up near the top to see a 3D volume and select a preset. If you still don't see it, click on the little cross-hair button at the top of your 3D window. I highlighted the buttons on your image. Slicer crop capture.tiff
  8. Make sure you check the box to "Enable" crop and also open the eye next to "Display ROI"--see the screenshots above, they're under the Volume Rendering preset dropdown.
  9. You should not have to drag the crop box from the blue to the bottom--it will appear in all views. I've always had it show up as enclosing the whole volume. Are you able to find your crop box at all?
  10. I printed a slice I made using the Easy Clip tool in Slicer. It works but you can see the facets on the top surface (just off by one layer it seems) that are not totally flat for some reason. The filament was not super fresh so it's a messy print.
  11. You can see and adjust the cropping box in both the 3D window and in the slices below. In the 3D window, you can left-click and drag anywhere to rotate the volume and box around in 3D to see the adjustable points on each surface. The box always starts out around your whole volume, but you can grab the top dot (light blue) and drag it down.
  12. Ok thanks. I might have to try that. The EasyClip in Slicer looks like it gives me a flat plane, but when I slice it in my printing software, the top layer is not totally flat. I guess I'll just have to print it and see how it looks.
  13. Thanks Dr. Mike! I thought about trying something like that in Meshmixer too--using a plane and then Boolean subtraction. Does the cut in Blender give you a flat surface? I just searched through Slicer and found a module called EasyClip which lets you cut a 3D model, even without a DICOM volume loaded. I can enter the coordinates to cut at in the slice views and then the model is exportable. BUT my printer software is reading it all weird, so there must be some issues with the triangles or normals.
  14. I came across how to use the "Create Pivot" tool in Meshmixer to more precisely place a "Plane Cut," but it doesn't always seem to place the pivot where I want it. My heads are in FH with nasion at x = 0 and I want to make cuts at precise distances from this point or at other known points from the origin (I have nasion at x = 0, left and right porion at y = 0 and z = 0). When I use the default pivot placement, it sometimes places it at the origin, which is perfect because I can use that or use the "Transform" tool to shift the pivot a specific distance. Anyways, even with the same settings, the pivot is not always placed at the origin, so I'm not getting a cut at 0 every single time. Has anybody played with this or have a better way of getting cuts at a precise location? Meshlab has a "Compute Planar Section" which lets me take a cut at say, x = 0, but then I have to extrude it to get a printable layer.
  15. Version 1.0.0


    ABD009 from the CT Lymph Nodes Collection of TCIA.