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FSL  March 2009

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Subject:

Re: Reconstruction DTI image

From:

"Eddy D.L." <[log in to unmask]>

Reply-To:

FSL - FMRIB's Software Library <[log in to unmask]>

Date:

Tue, 10 Mar 2009 17:53:51 +0000

Content-Type:

text/plain

Parts/Attachments:

Parts/Attachments

text/plain (45 lines)

Hi Saad,
>..Now, if I understand you well, you want an average V1, V2 and V3 map..
Yes, I want to make a "template of the skeleton of white matter ", so i need
to kind of average V1,V2,V3.

1)I have a important question, in output of tbss_non_FA, I have
All_L1.nii.gz, why it have tree volume? I use this instruction sequence for
obtain one volume:

$FSLDIR/bin/fslmaths all_L1 -max 0 -Tmin -bin mean_L1_mask -odt char
$FSLDIR/bin/fslmaths all_L1 -mas mean_L1_mask all_L1
$FSLDIR/bin/fslmaths all_L1 -Tmean mean_L1 

It's a good job or no?

2)
>fslmaths V1_subject2 -mul V1_subject1 -add V1_dot
>fslmaths V1_dot -abs -div V1_dot V1_sign
>fslmaths V1_subject2 -mul V1_sign V1_subject2_reoriented
>And then add all the V1_subjectn_reoriented to get the mean

Sorry, I did not understand very well: unfortunately I used usually
mathematical steps, working directly with the images isn't easy for me, can
you explain me the mathematical concept e correlation with your instructions
please?
There is a manual for this?  
then:who is V1_dot?
If there is no manual, can you help me in the construction of the code?

>fslsplit V1 V1
>fslsplit V2 V2
>fslsplit V3 V3
>fslmaths L1 -mul V10000 -mul V10000 tmp1
>fslmaths L2 -mul V20000 -mul V20000 tmp2
>fslmaths L3 -mul V30000 -mul V30000 tmp3
>fslmaths tmp1 -add tmp2 -add tmp3 tensor11

Similarly to the above.

Sorry if I create you problems

Thanks

Eddy

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