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tsehrhardt

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Everything posted by tsehrhardt

  1. You can go to Analysis--> Inspector and it will drop pins indicating the holes and you can click them to fill in. Since your edges are highlighted blue, Meshmixer knows those edges outline holes.
  2. I will be presenting a workshop titled "Meshlab for Virtual Osteology" at the upcoming online Virtual Osteology Conference, May 24-28, 2021: https://sites.google.com/view/bioanttalks/call-for-papers. Abstract submission for presentations is open now until March 31, 2021. Terrie
  3. I don't have any advice on pricing, but thank you for sharing your work and the creators3d site!
  4. I think vtk.js or 3DHOP would work well. 3DHOP has measurement, transparency, and clipping and works well with CT and microCT models. I have generated static pages with 3DHOP, but I think for a site like this you would need a "viewer" page that models get directed to or generated when someone wants to see it in 3D. Sketchfab can also be used since you only need to view one model at a time and it supports public or private models, you can set whether models are downloadable or just viewable, but generating a custom viewer with more features for your own site requires a Premium or above account.
  5. It was good. The live discourse on Wednesday was fun. Tuesday was mostly presentation of new features, Slicer citations and number of users/posts in the discourse. Thursday was web applications--they mentioned vtk.js and the gltf export Wed when I brought up Sketchfab and there was a presentation on it yesterday so that was helpful. Now I need to learn vtk.js!
  6. Maybe this: https://github.com/sketchfab/ckeditor-plugin/tree/master/examples/ipb-3.2.0
  7. bbcode [sketchfab]357ea8b45d854b0eaf138c60081370e8[/sketchfab] Left and Right Os Coxae: Visible Human Female by Terrie Simmons-Ehrhardt on Sketchfab
  8. https://sketchfab.com/oembed?url=https://sketchfab.com/models/357ea8b45d854b0eaf138c60081370e8
  9. Ok, I found this on Sketchfab's site: https://sketchfab.com/developers/oembed https://sketchfab.com/oembed?url=https://sketchfab.com/3d-models/left-and-right-os-coxae-visible-human-female-357ea8b45d854b0eaf138c60081370e8
  10. <iframe width="480" height="373" frameborder="0" scrolling="no" marginheight="0" marginwidth="0" id="kitware-vol-viewer" title="Volume viewer" src="https://kitware.github.io/vtk-js/examples/VolumeViewer/VolumeViewer.html?fileURL=https://data.kitware.com/api/v1/item/59e12e988d777f31ac6455c5/download"> </iframe>
  11. <iframe width="480" height="373" frameborder="0" scrolling="no" marginheight="0" marginwidth="0" id="kitware-vol-viewer" title="Volume viewer" src="https://kitware.github.io/vtk-js/examples/VolumeViewer/VolumeViewer.html?fileURL=https://data.kitware.com/api/v1/item/59e12e988d777f31ac6455c5/download"> </iframe>
  12. Cool. I'm going to mess with vtk.js and see if that can work.
  13. Project Week for 3D Slicer: https://projectweek.na-mic.org/PW34_2020_Virtual/ Today is essentially live discourse. Terrie
  14. It might be a function of just allowing the Sketchfab url: Allowed iframe bases By default, iframes are usually stripped from posts. However, if you have a need to allow them, you can add URLs here. If the URL of an iframe matches one listed, it will be allowed through the parser.
  15. Allen I found this info on the InVision site: https://invisioncommunity.com/4guides/themes-and-customizations/editor-and-emoticons_327/adjusting-editor-settings-r135/
  16. Maybe I'll write a tutorial on this: I have played around with the Split Volume tool in the Segment Editor in 3D Slicer and it seems like it would be pretty nifty for some of the files uploaded here, although it does require you to create segments first. Basically you make your segments, apply Split Volume and it creates a new NRRD volume for each segment--they're all available when you click Save. So if you're segmenting just bones, it gets rid of the soft tissue voxels. Mask Volume might do something similar but I haven't played with it yet.
  17. Version 1.0.0

    2 downloads

    Left and right innominates from the Visible Human Female CT scan downloaded from https://mri.radiology.uiowa.edu/visible_human_datasets.html. Models were generated using the Segment Editor in 3D Slicer and internal components were removed using Meshlab so meshes are hollow. Use to practice siding, age estimation, sex estimation. Animation rotates each os coxae from anterior view to lateral to anterior to medial and back to anterior so the left and right sides can be compared in each view. Models are in anatomical position so they can be combined into one viewing space for comparison as shown--import both into Meshlab or 3D Slicer for further visualizations and/or measurements. Sketchfab viewer available here: https://skfb.ly/6VqV9 and can be embedded into Learning Management Systems.

    Free

  18. Version 1.0.0

    48 downloads

    skull, anthropology, sex, estimation, male, female orbit, mandible, maxilla, angle, ramus, coronoid, conduct, inner, frontal, temporal, parietal, occipital, mastoid, process, foramen, foramina, incisor, molar, premolar, canine, teeth, tooth, dental, dentistry, head, zygomatic, arch, Compare traits between male and female skulls as described in: https://www.morphopasse.com/uploads/8/4/0/8/8408493/klales_nij_database_manual_v1_03.29.19_on_website.pdf. Models were generated from TCIA Head and Neck Cetuximab collection (0522c0251 (top) and 0522c0476 (bottom)), originally under National Institute of Justice grant #2014-DN-BX-K005. Vertebrae were removed during segmentation for access to inferior landmarks, so occipital condyles may be flattened. Models are arranged so they can be combined into one viewing space for comparison as shown--import both into Meshlab or 3D Slicer for further visualizations and/or measurements. Sketchfab viewer available here: https://skfb.ly/6UDFQ and can be embedded into Learning Management Systems.

    Free

  19. You don't need to create separate DICOM files for the skull and mandible. Depending on the overlap of the teeth, you can erase some of the segmentation in order to create gaps between the skull and mandible--if you are segmenting yourself. If you are uploading to democratiz3d, you can download the model and then either apply a plane cut in Meshmixer or if you want the actual articulations, you can "paint" the parts of the model to delete to create the necessary gaps, then repair the holes. Again, the difficulty would depend on whether you can separate the teeth on the maxilla from the mandible.
  20. Yes definitely! I would definitely like to see it applied more to unidentified remains.
  21. 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. Terrie
  22. 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).
  23. tsehrhardt

    Mimics

    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.
  24. Version 1.0.0

    10 downloads

    Skull and face models were generated in Mimics from a CT scan from TCIA (citations: http://doi.org/10.7937/K9/TCIA.2015.K0F5CGLI, https://doi.org/10.7717/peerj.2057, https://link.springer.com/article/10.1007%2Fs10278-013-9622-7) as reference models for visualizing skin-to-bone relationships for forensic craniofacial identification applications. See Figshare for additional project information. Face model was hollowed in Meshlab and extruded to this individual's minimum facial tissue depth (1.6 mm) with Meshmixer (tutorial). Cuts were made in 3D Slicer using the EasyClip plugin to cut at specific landmark coordinate values: skin was cut through x-coordinate of pronasale and right oculus anterius, z-coordinate of bony glabella; bone was cut through x-coordinates of left and right oculus anterius, z-coordinate of glabella, y-plane was adjusted until posterior to cheilion. For 3D printing, I rotated the model until the posterior surface was flat on the bed and added a raft to hold the supports (I left the raft on--see pic), but a custom platform could be added instead with Meshmixer or Tinkercad. I usually leave most of the supports attached to hold the skin layer in place, but remove supports from inside the nasal aperture and sometimes remove supports from the lateral side to reveal the infraorbital foramen. I don't have dual extrusion, but you could probably print the skin in one color and bone in another. The above pics show a print at 300 micron resolution. **Note that this file contains two merged models that can be printed together or separately--to separate, open in Meshlab, right-click the model name in the layer dialog and select "Split into Connected Components" and save each layer as a separate model.

    Free

  25. What software did you use to cut the model in the first place? If you use Edit-->Plane Cut in Meshmixer or the EasyClip module in 3DSlicer, it should fill the gap for you with a flat surface.
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