I am Matthieu working on a 3D free-hand project involving ultrasound imaging and electromagnetic device. I am interested to use 3D Slicer for volume visualization instead of Matlab. I am also thinking that the toolbox SlicerIGT can be the solution to generate a volume of my acquisition data without using Matlab however I do not know/did not find the way to do it.
I am using a research scanner (Verasonics Vantage system) acquiring at a high frame rate (100 Hz) where we save all the frames and later on generate a dataset, see above an image of our dataset:
During the acquisition, we also save the position of the probe using a Polhemus electromagnetic device at 240 Hz. All positions are saved in a text file (see above) with [Source number / Tracker number / Frame number / 00 / Time Stamp / X / Y / Z / Azimuthal / Elevation / Rho] :
1 1 000000004 00 1625573624860503 15.113 -6.832 7.757 10.525 -49.260 65.391
1 2 000000004 00 1625573624860503 12.144 10.723 8.686 -50.461 -0.218 30.956
1 1 000000005 00 1625573624864646 15.113 -6.832 7.757 10.524 -49.260 65.392
1 2 000000005 00 1625573624864646 12.144 10.723 8.686 -50.461 -0.218 30.956
We use Matlab and some of our script to register all the frames with the tracking position and generate a volume:
But Matlab is not really great for 3D Visualization, so we export our volume from Matlab as a lot of images and import them in 3D Slicer where we also do some segmentation
It works well but I would like to avoid passing by Matlab to generate the volume and directly generate it using Slicer3D.
I saw that SlicerIGT allow the streaming of video and trackers position in real time of certain equipment. However, in our case we do not want to do it in real-time but only as post-process. Is it possible to do it? I have checked about it but did not find anything.
I have also checked in 3DSlicer if it is possible to import our tracking position but either, I did not find anything.
If there is no such solution, do you know which format file I can use to provide a tracking position for each of our images and then provide them to 3DSlicer? I am also happy to do this way in order to generate a volume.
Thank you for your advice.