The supposed "load regression map" that I generated did not make sense given the maps of the individual loads vs fix. I attached the original paradigm (run1.par), the slope paradigm which I tried to adapt from the other thread (SIRP_Run1_LoadSlopeTest.par) and an image showing the 1vfix, 3vfix, 5vfix, and 7vfix images from the original paradigm, as well as a large 2vFix image from the new paradigm, which I thought would have shown the within subjects regression (condition 2 being the weighted loads). "Desired results" was a poor description...it is more that the results do not seems to represent the load regression based on the individual load maps.
-Adam
what do you mean that you were not able to get the desired result? doug
Adam Nitenson wrote:
Hi Doug and Freesurfers,
Now that I have re-processed some of my data in Stable 5, I wouldlike to re-open a previous problem I was trying to tackle:
" We are using the Sternberg Item Recognition Paradigm in our study, which involves the memorization and recognition of groups of 1, 3, 5, and 7 letters. Each run has two sets of each condition (load). We want to determine if any regions of the brain activate in a linear pattern with increased task load (# of letters). I have already done regression analyses using genotype, but that was between subjects, while this analysis would be within subjects. Does anyone know how I could structure an analysis that would allow me to look at this? Is this something I have to do at the mkanalysis-sess level?"
I had tried doing this in Stable 4 using the method described herehttps://mail.nmr.mgh.harvard.edu/pipermail//freesurfer/2010-December/016557.... However, I was unable to generate the desired results, so I decided to switch over to Stable 5 as suggested.
Thanks,
Adam
---------------------------- Original Message
Subject: Re: [Freesurfer] Regression: Activation as a function of condition From: "Douglas N Greve" greve@nmr.mgh.harvard.edu Date: Tue, January 11, 2011 11:52 am To: "Adam Nitenson" nitenson@nmr.mgh.harvard.edu
You don't need to re-unpack. you don't run recon-all on the functional, only the anatomicals.
Adam Nitenson wrote:
So this means I will have to start at the unpacksdcmdir command and then recon-all to rerun the functionals?
You don't need to re-run the anatomicals, but you will need to rerun the functionals.
doug
Adam Nitenson wrote:
Hmm...it appears that we might need to make the transition over to Stable 5 then.
Would I have to reprocess all Stable 4 subjects again in Stable 5 (including the whole recon-all from bourget) process, or is there some sort of jumping off point from which I can start using the new stable?
Thanks,
Adam
> you can't do it in stable4, but you can in stable 5. > > doug > > > Adam Nitenson wrote: > > > >> Hello Freesurfers, >> >> We are using the Sternberg Item Recognition Paradigm in our >> study, >> which involves the memorization and recognition of groups of 1, 3, >> 5, >> and 7 letters. Each run has two sets of each condition (load). We >> want to determine if any regions of the brain activate in a linear >> pattern with increased task load. I have already done regression >> analyses using genotype, but that was between subjects, while this >> analysis would be within subjects. Does anyone know how I could >> structure an analysis (STABLE 4) that would allow me to look at >> this? >> Is this something I have to do at the mkanalysis-sess level? >> >> >> Thanks, >> >> Adam Nitenson, B.S. >> Brain Genomics Lab >> Massachusetts General Hospital >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> >> >> >> >> > -- > Douglas N. Greve, Ph.D. > MGH-NMR Center > greve@nmr.mgh.harvard.edu > Phone Number: 617-724-2358 > Fax: 617-726-7422 > > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html > > > > > > Adam Nitenson, B.S. Brain Genomics Lab Massachusetts General Hospital
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html
Adam Nitenson, B.S. Brain Genomics Lab Massachusetts General Hospital
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html
Adam Nitenson, B.S. Brain Genomics Lab Massachusetts General Hospital
Adam Nitenson, B.S. Brain Genomics Lab Massachusetts General Hospital _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html
Adam Nitenson, B.S. Brain Genomics Lab Massachusetts General Hospital