Brief Model Processing Run Sheet
Outlined below is a brief checklist for data processing and modelling using UWA procedures.
If you are unsure on what a step means, head to the extended version of this guide in the 3D mocap documentation pdf, or to Vicon Life Sciences Nexus tutorial youtube playlist.
Key: Green boxes are steps you will have to do in the processing and modelling flow. The different shade blue boxes are where you will decide what methods to use, for example whether you will use the auto label features or manually label your trials. If you are unsure what methods are best for your situation head to either the extended pdf guide or to the corresponding content sections on the Clearinghouse site.
| Why | Step to complete | Collected? |
|---|---|---|
| Data preparation | ||
| 1. Subject preparation | Import VST: | |
Update subject parameters: | ||
2. Labelling a) IF live labelling | If you auto labelled using the live functions during your data capture, you still will need to gap fill trials | |
| Visual inspection of the marker trajectories (keep an eye out for any trajectories that look out of the ordinary as a result of some less then desired gap filling) | ||
| Use the save version function (this will save a back up version of your data before you start making changes through gap filling) | ||
| b) IF labelling after the data capture | Reconstruct and manually label one movement trial | |
| Run “calibrate labelling skeleton ROM” pipeline | ||
| Run “reconstruct and label” in a batch process | ||
| Gap fill all trials | ||
| Visual inspection of the marker trajectories (keep an eye out for any trajectories that look out of the ordinary as a result of some less then desired gap filling) | ||
| Use the save version function (this will save a back up version of your data before you start making changes through gap filling) | ||
| c) IF manually labelling | Reconstruct all trials in a batch process | |
| Open each trial and label the marker trajectories individually | ||
| Use the save version function (this will save a back up version of your data before you start making changes through gap filling) | ||
| Gap fill all trials | ||
| 3. Force plate processing | Run the “Reset Force Plate Offsets” pipeline when there is nothing on the force plate (this corrects signal drift away from zero and not always necessary). | |
| Run any filtering required for the force plate data. Depending on what you are interested in using your force plate data for may influence your filtering. A residual analysis script has been provided for you to analyse the best cut off frequencies to filter your data at. (please note the force plate should be free of noise – this is only if there are issues in the laboratory environment that cannot be attended to) | ||
| 4. Filtering | Run any filtering needed for your trajectory frequencies. Again, you may want to use the residual analysis script to aid in filtering thresholds. | |
| Use the save version function to save a copy of filtered data | ||
| Modelling | ||
| 5. Pointer calibration (OPTIONAL) | Open the first pointer trial and label the required markers (revert to uncalibrated to repopulate the labelling list) | |
| Run the UWA static modelling pipeline | ||
| Repeat this for the remaining pointer trials. Once completed for all reprocess the static model on the a-pose trial | ||
| 6. Lower body functional calibration (OPTIONAL) | SCoRE: Open left hip swinger trial and label the required markers (left thigh and pelvis markers) | |
Run SCoRE pipeline: | ||
| Run the UWA static lower body modelling pipeline on the first frame of the trial | ||
| Complete the same steps for the right hip swinger trial | ||
| SARA: Open the squat trial and label the required markers (tibia cluster and thigh clusters left and right) | ||
|
Run SARA pipeline: - ‘Calibrate OCST’ for the thigh and the shank/tibia segments ‘Calibrate SCoRE/SARA’ with SARA SELECTED | ||
| Run the UWA static lower body modelling pipeline on the first frame. | ||
| 7. Upper body functional calibration (OPTIONAL) | Open the elbow flexion-extension trials in neutral pose trial and label only the distal upper arm and forearm cluster | |
|
Run SARA pipeline: - ‘Calibrate OCST’ for the upper arm and forearm segments Calibrate SCoRE/SARA’ with SARA SELECTED | ||
| Run the UWA upper body static model on the first frame of the trial | ||
| 8. Static calibration | Open the A-pose calibration trial | |
| Run the UWA static modelling pipeline | ||
| 9. Force plate processing | Run the GRF4 script to join GRF outputs (use this if you wanting to run the automated eventing script) | |
| Run the split contact script if you are working with multiple forceplates | ||
| 10. Dynamic modelling | Open your first dynamic trial and run the dynamic modelling file | |
| Check your data outputs | ||
| Run the dynamic model on all remaining trials (batch process) | ||
| 11. Identifying events | If you require for your analysis to event trials (e.g. toe-off during gait) you can either manually identify this or run the event scripts provided (eventing trials can add more meaning to your output data) | |
| Export the data | ||
| 12. Exporting | Export your data in the relevant format for your use case | |
| Additional scripts can also be used at this final step dependent on your assessment e.g., SPM or jump height/length scripts | ||