Manuals

1. Medicalholodeck
1.1 Main control pad
1.1.1 Library 1.1.2 Jump 1.1.3 4D Record 1.1.4 TeamXR 1.1.5 Remote Render 1.1.6 Settings 1.1.7 Reset workspace 1.1.8 Undo 1.1.9 Redo 1.1.10 Exit 1.1.11 Capture a movie 1.1.12 Take a photo 1.1.13 Handle
1.2 Object pad
1.2.1 Cutter 1.2.2 Laser 1.2.3 Masking 1.2.4 Measure area 1.2.5 Measure distance 1.2.6 Delete 1.2.7 Scale 1.2.8 Move 1.2.9 Move backward 1.2.10 Frame rate 1.2.11 Remove dataset 1.2.12 Light on/off 1.2.13 Measure angle 1.2.14 Draw 1.2.15 Marker 1.2.16 Rotate horizontally 1.2.17 Rotate vertically
1.3 Library panel
1.3.1 Saved scenes 1.3.2 Medical Imaging 1.3.3 RecordXR 1.3.4 Dissection Master 1.3.5 Anatomy Master
1.4 Object marker
1.4.1 Center 1.4.2 Lock 1.4.3 Delete 1.4.4 Groups 1.4.5 Cuts visibility
1.5 Lighting
1.5.1 Light 1.5.2 Light Marker
1.6 Controllers
1.6.1 Left controller 1.6.2 Right controller
1.7 Settings
1.7.1 Settings 1.7.2 Licenses 1.7.3 PACS 1.7.4 Services
1.8 Quality settings
1.8.1 Medical imaging settings 1.8.2 Low framerate screen 1.8.3 About 3D DICOM files 1.8.4 Processing and texturing 1.8.5 Challenges with large datasets in VR 1.8.6 Adaptive detail rendering
1.9 Tutorials
1.9.1 Activate licenses 1.9.2 Use Your Hands To Navigate in VR 1.9.3 Capture Screenshots and Videos
2. Medical Imaging
2.1 User interface
2.1.1 Import 2.1.2 Save 2.1.3 Export 2.1.4 Load data 2.1.5 Delete data
2.2 Medical Imaging panel
2.2.1 Option preset 2.2.2 Transfer function 2.2.3 Tissue filter 2.2.4 Transfer function preset 2.2.5 Mesh generator 2.2.6 Edge filter 2.2.7 Quality settings 2.2.8 Handle
2.3 Tutorials
2.3.1 Import and display data 2.3.2 Importing data on standalone devices 2.3.3 Edit DICOM 2.3.4 Measure, mark and draw on DICOM
3. Medicalholodeck AI
3.1 What is AI segmentation? 3.2 How to run AI segmentation in the cloud? 3.3 How to run AI segmentation on your device?
3.4 How to use the segmentation control panel?
3.4.1 Structure 3.4.2 Options
3.5 How to install TotalSegmentator?
3.5.1 Installing Python 3.5.2 Installing PyThorch 3.5.3 Installing TotalSegmentator
4. Dissection Master
4.1 Model
4.1.1 Changing layers 4.1.2 Scaling 4.1.3 Moving 4.1.4 Rotating 4.1.5 Annotations 4.1.6 Visibility Controls
5. Anatomy Master
5.1 Model
5.1.1 Scaling 5.1.2 Taking apart 5.1.3 Moving 5.1.4 Rotating 5.1.5 Cutting 5.1.6 Annotations 5.1.7 Visibility controls
6. RecordXR
6.1 User interface
6.1.1 Main control pad 6.1.2 RecordXR panel 6.1.3 Library panel
7. RecordXR Studio
7.1 Editing tools
7.1.1 Preview window 7.1.2 Timeline toolbar 7.1.3 Timeline
7.2 Metadata section
7.2.1 Title 7.2.2 Avatar 7.2.3 Preview icons 7.2.4 Duration 7.2.5 Description
7.3 Project controls
7.3.1 Save project 7.3.2 Export RXR 7.3.3 Close
7.4 Tutorials
7.4.1 Get records from Medicalholodeck 7.4.2 Open RecordXR Studio 7.4.3 Open a project 7.4.4 Add recordings 7.4.5 Zoom in/zoom out 7.4.6 Change the order 7.4.7 Trim 7.4.8 Set the metadata 7.4.9 Add an avatar 7.4.10 Saving the project 7.4.11 Export a .RXR file 7.4.12 Exit the platform 7.4.13 Open the recording
8. Link
8.1 Device dashboard
8.1.1 Device bar 8.1.2 License management 8.1.3 Datasets 8.1.4 RecordXR 8.1.5 Presets 8.1.6 Transfer Functions 8.1.7 Upload
8.2 Tutorials
8.2.1 How to add your device 8.2.2 Activating a license via Link 8.2.3 Uploading data from your computer to your headset 8.2.4 Accessing files via Link

5. How to install TotalSegmentator

To install TotalSegmentator you need to first install Python, PyTorch and add python to the PATH. TotalSegmentator works on Ubuntu, macOS, and Windows, and supports both CPU and GPU. Performance on CPU is significantly slower.

5.1

Installing Python

If you already have Python on your device you can skip this step.

How to check if you have Python installed?

  1. Open command prompt.

  2. Type python --version

  3. If it’s installed you will see the installed version. If not, a message like 'python' is not recognized as an internal or external command will be shown.

How to install Python?

  1. Go to Download Python Website.

  2. Find the version between 3.7 and 3.13.

  3. If it’s installed you will see the installed version. If not, a message like 'python' is not recognized as an internal or external command will be shown.

  4. Make sure to select the 'Add python.exe to PATH' checkbox, and ensure that pip will be installed alongside Python (it is included when you choose the 'Install Now' option).

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  5. Install Python.

  6. You can check if installed properly by following the steps above: How to check if you have Python installed?

Python in PATH

Note, that it’s very important to have Python added to the environmental variable PATH. To see if you have it in PATH type ‘python’ in the command prompt. If it’s added you will see it ‘open’ in the command prompt. If not, a message like that will appear ‘python is not recognized as an internal or external variable. See here how to add Python to the PATH.

5.2

Installing PyTorch

If you already have PyTorch on your device you can skip this step.

How to check if you have PyTorch installed?

  1. Open command prompt.

  2. Type python

  3. Type import torch

  4. Type print(torch.__version__)

  5. If it’s installed you will see the installed version. If not, a message like 'ModuleNotFoundError: No module named 'torch' will be shown.

How to install PyTorch?

  1. Go to Download PyTorch Website.

  2. Choose the correct version of PyTorch depending if you want to use the CPU or CUDA (GPU) version.

  3. Copy (CTRL+C) the command specified in Run this Command section e.g pip3 install torch torchvision torchaudio --index-url https://download.pytorch.org/whl/cu118

  4. Open command prompt and paste the copied command.

  5. Install PyTorch.

  6. You can check if installed properly by following the steps above: How to check if you have PyTorch installed?

5.3

Installing TotalSegmentator

If you already have TotalSegmentator on your device you can skip this step.

How to install TotalSegmentator?

  1. Open command prompt.

  2. Type pip install TotalSegmentator==2.5.0

  3. Install TotalSegmentator.

  4. To check if TotalSegmentator is installed properly type in the command line TotalSegmentator -–version. It should show the installed version.

  5. Restart your computer to make TotalSegmentator available to other apps, like Medicalholodeck.

  6. Go to the settings and allow showing local segmentation models.

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  7. Once everything is installed correctly, the segmentation options in Medicalholodeck will appear without the cloud note, indicating local processing.