Oh, that's an error, you do not have to include --cache-in. Where is
that page?
On 11/5/2020 10:32 AM, Agurne Sampedro Calvete wrote:
External Email - Use Caution
Dear Douglas,
Thank you very much for your rapid response. I have another question.
I am following the FS Repeated Measures tutorial and therefore, I ran
this: mris_preproc --target fsaverage --hemi lh --meas thickness --out
lh.thickness.mgh --fsgd rmanova.fsgd.
However, in the FS Group Analysis tutorial, it says that you must
include "--cache-in thickness.fwhm10.fsaverage" if the data was
preprocessed with recon-all with the -qcache option, which was my
case. As I am doing longitudinal analyses, do I have to skip this
option and just follow the Repeated Measures tutorial or do I have to
include the --cache option?
Thank you very much.
Best regards,
Agurne
Neuropsychology of Severe Medical Conditions Research Team
Dpt of Methods and Experimental Psychology
Faculty of Psychology and Education
University of Deusto
neurolab.deusto.es
<http://secure-web.cisco.com/1mlmMbtyefCiLJzS978jSNHK52SkNtXw82_-ayeIvMW-4NwP5LeUX1Oi3tq3WOvTWD5xLqYKVmBT74ttrwlbOPZdJ83V5peA3WPEiR6eluPhb9LMt7TRmisi8apO8qRnjIcN6p5bYnFz2i7EdkVhw3QnwVZ2aqI3kc46Dg8AZGt0-qFoBxCse8MAjUCM9DOlQui5WVtOOZL9_L0LvbVkJHQ/http%3A%2F%2Fneurolab.deusto.es%2F>
Avda. de las Universidades 24,
48007, Bilbao (Spain)
Phone: +34 944139000 (ext. 3015)
El jue., 5 nov. 2020 a las 15:58, Douglas N. Greve
(<dgr...@mgh.harvard.edu <mailto:dgr...@mgh.harvard.edu>>) escribió:
In this case, the paired-t is identical to RM 2x2 ANOVA. But to
answer your question, the first example you give is the right way
to handle it.
On 11/5/2020 4:32 AM, Agurne Sampedro Calvete wrote:
External Email - Use Caution
Dear Freesurfer experts,
I am trying to do a longitudinal repeated measures ANOVA 2x2,
with two groups (experimental vs control) and two time points
(pre and post treatment).
Although I have run a paired t-test, now I would like to do a
repeated measures anova 2x2, since I am doing the same analyses
with other data in other softwares.
I am trying to follow the tutorial *MailScanner has detected a
possible fraud attempt from "secure-web.cisco.com" claiming to
be*
https://surfer.nmr.mgh.harvard.edu/fswiki/RepeatedMeasuresAnova
<https://secure-web.cisco.com/1xcEvqAuPN3MsqK1JjC6qoZbooZS3kpB4WEU1Lx8hK28grFkOWFgj7ja5TXppcZRh8Vr2s3TJyQKT-sr-c0qt4XJSU7f74cElgVAI4K1nOBI5i5L0YQBzYutTVn-MwCGM_OotAt9VM1mzmm1MUuXbYtZC4-QfIujBH30LAwD5RtwZ6vGRv4JC7ocISixV0s52BsCadrLE2J-3CdqLLZnJRA/https%3A%2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FRepeatedMeasuresAnova>,
but I have several doubts when designing the FSGD file as well as
the contrasts.
How should it be the FSGD file?
I have seen in a previous post the following design for the same
number fo groups and time points:
GroupDescriptorFile 1
Class Subject1
Class Subject2
Variables
Tp1vsTp2.GrExp
Tp1vsTp2.GrControl
Input Subject1_time1 Subject1
1 0
Input Subject1_time2 Subject1 -1 0
Input Subject2_time1 Subject2 0 1
Input Subject2_time2 Subject02
0 -1
Design matrix:
1 0 1 0
1 0 -1 0
0 1 0 1
0 1 0 -1
Contrasts (.mtx files):
Tp1vsTp2.GrExp 0 0 1 0
Tp1vsTp2.GrControl 0 0 0 -1
Interaction 0 0 1 -1
Would this design be the correct one to use in this case?
Alternatively, could it be this the correct one?
GroupDescriptorFile 1
Class Subject1
Class Subject2
Variables Tp1vsTp2
Groupxtime
Input Subject1_time1 Subject1
1 1
Input Subject1_time2 Subject1 -1 *-1*
Input Subject2_time1 Subject2 1 *-1*
Input Subject2_time2 Subject02 -1 1
Design matrix:
1 0 1 1
1 0 -1 -1
0 1 1 -1
0 1 -1 1
Contrasts (.mtx files):
Tp1vsTp2 0 0 1 0
Groupxtime Interaction 0 0 0 1
Thank you very much in advance.
Kind regards,
Agurne
Neuropsychology of Severe Medical Conditions Research Team
Dpt of Methods and Experimental Psychology
Faculty of Psychology and Education
University of Deusto
neurolab.deusto.es
<http://secure-web.cisco.com/1J2XHqATjb-s81WNLHHOzFHoMov247ukeyY9r_63MCuIYY3b3cgBooSYVXAHcxmruuUhAJRQeOK_M6GhmpQ2HLsoPViHsaOnuQmnS_hX44VhcAXEpVQmkpDhtamFGdp_Y3WSVnP0Hb0VMfltJoov6c0TVAyZfGD7j4wcdLUcORgyyH2uu_WSTkVwMZ87NUx0paSiYbguuSG9LFBN_NCd9ZQ/http%3A%2F%2Fneurolab.deusto.es%2F>
Avda. de las Universidades 24,
48007, Bilbao (Spain)
Phone: +34 944139000 (ext. 3015)
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu>
*MailScanner has detected a possible fraud attempt from
"secure-web.cisco.com" claiming to be*
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
<https://secure-web.cisco.com/1Jem34chpPCHsjtBsJuqJZVyROTvpLIYYdJJC55-ICnVW3ESEKCmsC6eW9LB5d5ifNKvbDn5kjCTLUgekR_iPR1nUUewDdNSAar__UZ9NH2kcFsqXd4ArR4JKSJL6XT6lbPeqIve9m1qOwslfkpsChNtyAeWFsRGhX-oH5GTyh0j92WiaYNTiqROCWdLU6aRLwzbA0WJf6RWmMJFXv5cB4Q/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer>
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu>
*MailScanner has detected a possible fraud attempt from
"secure-web.cisco.com" claiming to be*
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
<https://secure-web.cisco.com/1Jem34chpPCHsjtBsJuqJZVyROTvpLIYYdJJC55-ICnVW3ESEKCmsC6eW9LB5d5ifNKvbDn5kjCTLUgekR_iPR1nUUewDdNSAar__UZ9NH2kcFsqXd4ArR4JKSJL6XT6lbPeqIve9m1qOwslfkpsChNtyAeWFsRGhX-oH5GTyh0j92WiaYNTiqROCWdLU6aRLwzbA0WJf6RWmMJFXv5cB4Q/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer>
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
