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Posts posted by tsehrhardt

  1. In case there is any interest here in the applications of radiology and imaging in forensic science, I wanted to share the link to the next conference in Albuquerque, New Mexico, May 14-16, 2020: https://www.isfri2020.com/.


    I definitely plan to go and will probably submit some kind of abstract about bones from CT supplementing reference collections for forensic anthropology. The abstract submission deadline is December 12.



  2. You can also use the EasyClip tool in 3DSlicer:

    import your CT volume and your 3D model (or even just your 3D model), then you can use the CT slices as planes to indicate where you want to cut--you can still rotate them if needed. You can save the half you want and even "undo" and save the other side (similar to Meshmixer). 


    Slicer is especially handy if you have landmark coordinates and want to place a cut exactly at a specific coordinate, for example if you have oriented models and nasion is at x = 0--you can type this in to the appropriate slice view (red, yellow, green).

  3. On 3/22/2019 at 2:31 PM, mariancue said:

    Hello everybody!


    My name is Maria and I ´m a Research Student. 


    Actually, I am working with Mimics Medical and I have some problems, perhaps, you could help me. In my case, my images files are TIFF format not DICOM file and Mimics is only software that I know that it is eneable with this format. 


    My question is: is there any software other than Mimics? 


    Thank you,

    For tiffs, I like to open the stack in Fiji and save as NRRD--the NRRD opens much faster in Slicer. You can also set the spacing in Fiji for the NRRD to have the correct dimensions in Slicer.

  4. 10 hours ago, Dr. Mike said:


    Speaking of sharing anthropology files online, embodi3D has a dedicated section in the file library for anthropological files. But, it hasn't been active at all. Do you have any ideas for how we can get better sharing in this field? We'd like to help promote 3D printing in anthropology as well as medicine.



    Thanks in advance,

    Dr. Mike

    I know! Anthropologists tend to use Morphosource, although I haven't seen clinically derived data there. As you might have gathered from the survey, there is much discussion in anthropology about the ethics of sharing/posting human skeletal data, especially with clinical CT data becoming more accessible.


    I have full and cut facial models from TCIA--would that be ok to post here? I have also built 3D html pages that allow interaction with the models that I'm trying to find/build a home for so that I could possibly also cross-reference to printable models here.

  5. Sharing for another anthropologist in case anybody here is interested in contributing their thoughts about sharing images and 3D models of human bones. 


    This is the link to a survey called "Perspective on the dissemination of three-dimensional models of human skeletal remains online in the United States." https://docs.google.com/forms/d/e/1FAIpQLSc-6lvKD9oPu69YVf_aWrnZC2JFNrBred_DM8Xj3xqfauNveQ/viewform




  6. There are some muscle sets on Sketcfab but I haven't found any that are downloadable. The ATOR site (http://arc-team-open-research.blogspot.com/2013/12/modeling-muscles-and-skin-in-blenders.html) has posts on many facial reconstruction resources, primarily using Blender. I can't find whether Cicero Moraes has provided links to muscle models.


    If you are not familiar with Blender, Meshmixer might be easier to add primitives and deform them to the appropriate shapes. I have found that you can also import a skull two times into Meshmixer so that you can use the sculpting tools to "pull" the muscles or even tissue depth pegs from one skull mesh while leaving an intact/visible skull mesh underneath.

  7. 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!

  8. 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.



    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.

  9. 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.

  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.


    Crop Box.png


  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.


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