Dear FS Experts,
I have one group to compare the difference between their preoperative and postoperative after one month. I followed http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/LongitudinalTutorial to process data. I run these command in number 2.* Longitudinal Image Processing*：
1. recon-all –s sub01_MR1 –all / recon-all –s sub01_MR2 –all
2. recon-all -base sub01 -tp sub01_MR1 -tp sub01_MR2 –all
3. recon-all -long sub01_MR1 sub01 –all / recon-all -long sub01_MR2 sub01 –all
I am confused about choosing which kind of analysis in the page http://surfer.nmr.mgh.harvard.edu/fswiki/LongitudinalStatistics And I tried http://surfer.nmr.mgh.harvard.edu/fswiki/RepeatedMeasuresAnova
The “rmanova.fsgd”:
GroupDescriptorFile 1
Class sub01
Class sub02
…
Variables TP1-vs-TP2
Input sub01_MR1 sub01 1
Input sub01_MR2 sub01 -1
Input sub02_MR1 sub02 1
Input sub02_MR2 sub02 -1
…
“tp1-va-tp2.mtx”: 0 0 … 1
And I look in one mail in the list, say “one group to use Paird Analysis easier”. http://surfer.nmr.mgh.harvard.edu/fswiki/PairedAnalysis
“pairs.fsgd”:
GroupDescriptorFile 1
Class Main
Input sub04_MR1 Main
Input sub04_MR2 Main
Input sub05_MR1 Main
Input sub05_MR2 Main
…
“paird-diff.fsgd” :
GroupDescriptorFile 1
Class Main
Variables Age
Input sub04pair Main 24
Input sub05pair Main 27
…
“mean.mtx”: 1 0
My question：
1. Are the above several files I set up correct？？There are inconsistent results in them… So which one should I choose??
2. I found the increase or decrease a subjects had a great influence on the analysis result, how to filter the participants??
Looking forward to reply, and thanks very much!
Kind regards,
Livia
answers below
On 3/7/17 7:54 AM, 刘丽 wrote:
Dear FS Experts,
I have one group to compare the difference between their preoperative and postoperative after one month. I followed http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/LongitudinalTutorial to process data. I run these command in number 2.* Longitudinal Image Processing*：
recon-all –s sub01_MR1 –all / recon-all –s sub01_MR2 –all**
recon-all -base sub01 -tp sub01_MR1 -tp sub01_MR2 –all
recon-all -long sub01_MR1 sub01 –all / recon-all -long sub01_MR2
sub01 –all
I am confused about choosing which kind of analysis in the page http://surfer.nmr.mgh.harvard.edu/fswiki/LongitudinalStatistics And I tried http://surfer.nmr.mgh.harvard.edu/fswiki/RepeatedMeasuresAnova
The “rmanova.fsgd”:
GroupDescriptorFile 1
Class sub01
Class sub02
…
Variables TP1-vs-TP2
Input sub01_MR1 sub01 1
Input sub01_MR2 sub01 -1
Input sub02_MR1 sub02 1
Input sub02_MR2 sub02 -1
…
“tp1-va-tp2.mtx”: 0 0 … 1
And I look in one mail in the list, say “one group to use Paird Analysis easier”. http://surfer.nmr.mgh.harvard.edu/fswiki/PairedAnalysis
“pairs.fsgd”:
GroupDescriptorFile 1
Class Main
Input sub04_MR1 Main
Input sub04_MR2 Main
Input sub05_MR1 Main
Input sub05_MR2 Main
…
“paird-diff.fsgd” : **
GroupDescriptorFile 1
Class Main
Variables Age
Input sub04pair Main 24
Input sub05pair Main 27
…
“mean.mtx”: 1 0
My question：
- Are the above several files I set up correct？？There are
inconsistent results in them… So which one should I choose??
Assuming you have no covariates, they should give identical results. Note that for the paired-diff, you need to subtract tp1 from tp2 manually and pass the result to mri_glmfit.
- I found the increase or decrease a subjects had a great influence
on the analysis result, how to filter the participants??
not sure what you mean hear. can you elaborate?
Looking forward to reply, and thanks very much!
Kind regards,
Livia
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Re: [Freesurfer] one group in RepeatedMeasuresAnova or PairdAnalysis
Dear Douglas Greve, Thank you for your reply. I'm very sorry that I can't directly reply on the web, so I had to be sent a new email.
I still have a question for your answer “ Note that for the paired-diff, you need to subtract tp1 from tp2 manually and pass the result to mri_glmfit.” Would you please describe some more detail for me? And in the paired analysis, if I have no covariates, what the mean.mtx should be?
I'm terribly sorry, and thanks again. Livia Liu
2017-03-07 20:54 GMT+08:00 刘丽 livialiu333@gmail.com:
Dear FS Experts,
I have one group to compare the difference between their preoperative and postoperative after one month. I followed http://surfer.nmr.mgh.harvard. edu/fswiki/FsTutorial/LongitudinalTutorial to process data. I run these command in number 2.* Longitudinal Image Processing*：
recon-all –s sub01_MR1 –all / recon-all –s sub01_MR2 –all
recon-all -base sub01 -tp sub01_MR1 -tp sub01_MR2 –all
recon-all -long sub01_MR1 sub01 –all / recon-all -long sub01_MR2 sub01
–all
I am confused about choosing which kind of analysis in the page http://surfer.nmr.mgh.harvard.edu/fswiki/LongitudinalStatistics And I tried http://surfer.nmr.mgh.harvard.edu/fswiki/RepeatedMeasuresAnova
The “rmanova.fsgd”:
GroupDescriptorFile 1
Class sub01
Class sub02
…
Variables TP1-vs-TP2
Input sub01_MR1 sub01 1
Input sub01_MR2 sub01 -1
Input sub02_MR1 sub02 1
Input sub02_MR2 sub02 -1
…
“tp1-va-tp2.mtx”: 0 0 … 1
And I look in one mail in the list, say “one group to use Paird Analysis easier”. http://surfer.nmr.mgh.harvard.edu/fswiki/PairedAnalysis
“pairs.fsgd”:
GroupDescriptorFile 1
Class Main
Input sub04_MR1 Main
Input sub04_MR2 Main
Input sub05_MR1 Main
Input sub05_MR2 Main
…
“paird-diff.fsgd” :
GroupDescriptorFile 1
Class Main
Variables Age
Input sub04pair Main 24
Input sub05pair Main 27
…
“mean.mtx”: 1 0
My question：
- Are the above several files I set up correct？？There are inconsistent
results in them… So which one should I choose??
- I found the increase or decrease a subjects had a great influence on
the analysis result, how to filter the participants??
Looking forward to reply, and thanks very much!
Kind regards,
Livia
freesurfer@nmr.mgh.harvard.edu
-
Douglas Greve -
Livia Liu -
刘丽