A couple of questions here on the fsl-mrs software. I started running some pilot data through fsl-mrs and have run into a small issue when visualizing the data via mrs_vis. I can load the data in fsleyes (super cool )but when running the mrs_vis command I get this error:
Something with the misc.py script… any suggestions on how to fix?
Issue number 2 is in the svs_segment command, I am comparing this pipeline to our own. For the voxel segmentation values, we see quite different results, we use BET and FAST from FSL and get WM=0.19697396 GM=0.58993709 CSF= 0.21308888 for an ~8ML ACC voxel and in fsl-mrs the values are= “CSF”: 0.296241, “GM”: 0.523948, “WM”: 0.179812. Is there anyway to not run the linear registration in svs_segment to compare these a bit more closely?
Lastly, just some visual issues in fsleyes, I installed the latest version and the brain display apears to be tilted back, as if the subject is taking a drink . The file is fine, when I visualize it in MRIcroGL or Matlab, but just curious if other are running into this issue as well. This occurs when I load the unsegmented 3DT1 as well as the segmented and betted files.
Thank you so much in adavance,