On 27 February 2013 21:30, Martin Reuter <
mreuter@nmr.mgh.harvard.edu> wrote:
> Hi Chikku,
>
> the -qcache command is for cross sectional processing. It is not done in the
> base and does not need to be done there.
>
> The base is like an additional time point so it does run from the start and
> even contains some extra steps. 12hrs are not unlikely.
>
> You will need to also run the recon all again on all time points with the
> -long flag.
>
> Then, once those are processed, you have several options for the analysis,
> see
>
http://surfer.nmr.mgh.harvard.edu/fswiki/LongitudinalStatistics>
> we recommend linear mixed effects, described here:
>
http://surfer.nmr.mgh.harvard.edu/fswiki/LinearMixedEffectsModels> but in your simple setup (2 time points for each subject), you can also use
> the direct analysis of atrophy. For that you'd do
> a) run some processing scripts that compute the rate of change in each
> subject (e.g. long_mris_slopes or long_stats_slopes)
> b) use mri_glmfit or qdec to analyze those rates (one for each subject)
> across groups etc.
> That is described here:
>
http://surfer.nmr.mgh.harvard.edu/fswiki/LongitudinalTwoStageModel>
http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/LongitudinalTutorial
>
> Best, Martin
>
>
> On 02/27/2013 11:19 AM, Varghese Chikku wrote:
>>
>> Dear all,
>> I am bit confused with the Qdec process.
>> I finished recon all for 2 time points and want to create
>> longitudinal data.From FS tutorial I learned to create
>> within-subject templates for processing,which is running now with
>> recon-all -base <templateID> -tp <tp1id> -tp <tp2id> ... -all.
>> Now,in an other link of tutorial it says ,Qdec needs each subject to
>> have a pre-computed smoothed data for the target surface ,recon-all -s
>> <subjid> -qcache
>> So my first is question is, recon-all -base <templateID> -tp <tp1id>
>> -tp <tp2id> ... -all will do recon-all -s <subjid> -qcache along or I
>> have to run it separately.
>> Second,recon-all -base <templateID> -tp <tp1id> -tp <tp2id> ... -all
>> is almost 12 hrs now and wondering if this is processing images
>> from the very begining.
>> Many Thanks
>> chikku
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>>
>
> --
> Dr. Martin Reuter
> Assistant in Neuroscience - Massachusetts General Hospital
> Instructor in Neurology - Harvard Medical School
> MGH / HMS / MIT
>
> A.A.Martinos Center for Biomedical Imaging
> 149 Thirteenth Street, Suite 2301
> Charlestown, MA 02129
>
> Phone: +1-617-724-5652
> Email:
>
mreuter@nmr.mgh.harvard.edu
>
reuter@mit.edu> Web :
http://reuter.mit.edu>
>
>
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