Hi,
I have used FAST on some acquisitions from focal coronal 2D T2 TSE sequence (0.35 x 0.35 x 2 mm, 512 x 512 x 46) images.
The problem is that one acquisition gets a different classification than the others and I cant see any important difference with this MRI volume.
The command I used on the bet skull stripped file was:
fast -n 4 -t 2 -g -o "${OUTPUT_DIR}/tissueT2.nii.gz" "${T2}"
The normal classification entails that in the tissueT2_pveseg.nii.gz file 1; CSF, 2; GM, 3; WM and 4; background are accurately classified. In the deviating case the classification results in 1; subarchnoid CSF, 2; GM, 3; WM and 4; ventricular CSF & background. (background is the remaining skull or meninges parts from the skull stripped file)
I also have tried to use the --manualseg option without success (should the mean intensities be specified in a certain order with a newline as separator?).
best regards
Erik
|