Hi Gwenaƫlle,
I'm sorry but I'm a novice and I don't really get everything of what you did.
I'll try to translate it the way I understand it.
> I think I've used the seed_to_target count using fslstats -m -k seed_mask instead of the fslstats -M as sometimes one or two voxels would have no particles
> reaching the targets and I thought they should count as zero (i.e. not be excluded), but I remember it not changing the results at all anyway...
First you did a classification of the seed voxels twice, once with association target and exclusion masks, and once with projection target and exclusion masks.
Then you took a command:
fslstats seed_to _projection_fib -m -k (seed_mask)
and the same for seed_to_association_fib
is that correct?
you are saying that using -M produced more less the same results, but I do have very different values:
fslstats seeds_to_proj_target_mask1.nii.gz -M -m -k /home/jednorog/final_tbss/tbss/stats/atlas/crossing_fib.nii.gz
3041.000000 0.082121
> As I performed the tractography using both fibre orientations crossing in my seed region as an initialisation, I then took the mean over the two tractography results > (so if you want, seed_to_target_f1 and seed_to_target_f2).
I don't get it. What was the mean for? When did use it?
All the Best,
Kasia
Cheers,
Gwenaelle
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Gwenaƫlle Douaud, PhD
FMRIB Centre, University of Oxford
John Radcliffe Hospital, Headington OX3 9DU Oxford UK
Tel: +44 (0) 1865 222 523 Fax: +44 (0) 1865 222 717
www.fmrib.ox.ac.uk/~douaud
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