Re: [Freesurfer] Converting mask.mgh to .nii

ue, 2 Jul 2019, Azeez, Azeezat wrote: > > > > > External Email - Use Caution > > > > Hello Bruce, > > > > Thank yo for the quick response. > > > > I ran this script: > > mri_convert lRMFC.masked.mgh lRMFC.masked.nii --out_orientation RAS &g

Re: [Freesurfer] Converting mask.mgh to .nii

you ran and what failed (in text format please, not as a > snapshot) > > cheers > Bruce > > > On Tue, 2 Jul > 2019, Azeez, Azeezat wrote: > > > > > External Email - Use Caution > > > > Hello, > > I wish to convert a .mgh file that can be opened

[Freesurfer] Converting mask.mgh to .nii

External Email - Use Caution Hello, I wish to convert a .mgh file that can be opened in AFNI I've used mri_convert , yet I am still unable to open the .nii file in AFNI. Any assistance in the matter would be greatly appreciated. Thank You, -- Azeezat Azeez PhD Student Brain Con

Re: [Freesurfer] Large cluster size significant clusters

MNIY MNIZCWP CWPLowCWPHi NVtxs Annot 1 -44.1549733 * 66963.16* -4.9 -47.1 29.6 0.00020 0.0 0.00040 131785 isthmuscingulate On Thu, Jan 10, 2019 at 1:42 PM Azeez, Azeezat wrote: > > Hello , > I have results for my mri_glmfit-sim. I find a si

[Freesurfer] Large cluster size significant clusters

External Email - Use Caution Hello , I have results for my mri_glmfit-sim. I find a significant results in my cache.th20abs.sig.cluster.summary. Yet, the cluster size of the significant cluster is almost the size of the total cortical surface area. I am not sure what to make of thi

Re: [Freesurfer] Bar/scatter plots for Interaction effects

h.harvard.edu> wrote: > I'm not sure I would refer to an interaction as a "decrease" per se > > On 11/26/2018 02:44 PM, Azeez, Azeezat wrote: > > > > External Email - Use Caution > > > > Thank You for the response. > > I'm tryin

Re: [Freesurfer] Bar/scatter plots for Interaction effects

se seen at cluster1 is a result of the interaction of DEVxSEXxDIA" Thank You On Mon, Nov 26, 2018 at 1:51 PM Greve, Douglas N.,Ph.D. < dgr...@mgh.harvard.edu> wrote: > Use csdbase.y.ocn.dat > See > mri_glmfit-sim --help > for more info > > On 11

[Freesurfer] Bar/scatter plots for Interaction effects

External Email - Use Caution Hello, I used FSGD option to run statistical test on 3 fixed factors each with 2 contrast levels. (DEVELOPMENT : old vs young, SEX: male vs female, DIAGNOSE: Control Vs disease ) I report significant interaction effects of DEVxSEXxDIA at a spefic clu

[Freesurfer] errors running mri_glmfit

External Email - Use Caution Hello I keep getting the same error and am not sure how to address the issue. I have attached the design matrix and the FSGD file and contrast file of interest Thanks for the help ERROR: matrix is ill-conditioned or badly scaled, condno = 1e+08

Re: [Freesurfer] QDEC analysis with more that 2 fixed factors

annot use QDEC for this. You must use the "command line" stream, > ie, create your FSGD file, run mris_preproc, smooth, run mri_glmfit, > then mri_glmfit-sim. See the tutorial on the wiki. > > On 10/17/2018 01:30 PM, Azeez, Azeezat wrote: > > > > External E

[Freesurfer] QDEC analysis with more that 2 fixed factors

External Email - Use Caution Hello, I would like to know how I can run statistical analysis in QDEC on a data set where there are 3 fixed factors each with 2 contrast levels. (DEVELOPMENT : old vs young, SEX: male vs female, DIAGNOSE: Control Vs disease ) Any help would be much a