Hello,
When using the --omatrix1 command in probtrackx (after a list of target masks has been defined using "targetmasks="), are the columns in the resulting matrix in order of:
1. The indices output when running "find_the_biggest", for example:
1 seeds_to_Angular_Gyrus_thrP50.nii.gz
2 seeds_to_Hippocampus_thrP50.nii.gz
3 seeds_to_MidcingulateCortex.nii.gz
4 seeds_to_SupFrontal_Gyrus_thrP50.nii.gz
5 seeds_to_Thalamus_thrP50.nii.gz
6 seeds_to_mPFC.nii.gz
2. The order of the ROIs listed in a target mask text file, for example:
/data/ROIs/Angular_Gyrus_thrP50.nii.gz
/data/ROIs/Hippocampus_thrP50.nii.gz
/data/ROIs//mPFC.nii
/data/ROIs/MidcingulateCortex.nii
/data/ROIs/SupFrontal_Gyrus_thrP50.nii.gz
/data/ROIs/Thalamus_thrP50.nii.gz
Thank you!
Samantha
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