Workflow for (Manual, Ground Truth) Segmentations in VFSS

[lassoan (Andras Lasso)]

See this post about tools used for segmenting 2D time series (ultrasound image sequences):

3D slicer for US segmentation

I think segmentation itself is best done outside of Slicer. I used to install TensorFlow and PyTorch in Slicer’s python environment and run segmentation in Slicer, but then it seemed better to run segmentation in everyone’s favorite AI environment, and communicate with Slicer via OpenIGTLink. You can stream the ultrasound images from Slicer or PLUS to an Anaconda environment and receive the segmentations back in Slicer (or whatever your application is) nearly real time. I still use Slicer for m…