Re: [Freesurfer] Question about running recon-all with deface

2015-12-15 Thread Mishra, Virendra
ipping, bias estimation and removal, etc...) cheers Bruce On Mon, 14 Dec 2015, Mishra, Virendra wrote: > > Hi, > >   > > I will appreciate if somebody could reply to my message that was posted > earlier. I copy-paste the message here again. > >   > > We are cur

[Freesurfer] Question about running recon-all with deface

2015-12-14 Thread Mishra, Virendra
Hi, I will appreciate if somebody could reply to my message that was posted earlier. I copy-paste the message here again. We are currently in the process of analyzing some data that was defaced using mri_deface command of freesurfer. This defaced data was then used as an input to recon-all

[Freesurfer] Question about running recon-all with deface

2015-12-10 Thread Mishra, Virendra
Hello, We are currently in the process of analyzing some data that was defaced using mri_deface command of freesurfer. This defaced data was then used as an input to recon-all and the volume and thickness was computed. These results were then compared against the same subject's recon-all with

Re: [Freesurfer] Should I use no-adjust in mri_surfcluster

2016-10-12 Thread Mishra, Virendra
] Should I use no-adjust in mri_surfcluster If all you want to do is fdr correction you can use this program: https://gate.nmr.mgh.harvard.edu/safelinks/greve/mri_fdr On 10/10/2016 07:31 PM, Mishra, Virendra wrote: > > Hi, FreeSurfer Users. > > I am comparing cortical th

[Freesurfer] Should I use no-adjust in mri_surfcluster

2016-10-10 Thread Mishra, Virendra
Hi, FreeSurfer Users. I am comparing cortical thickness of 2 groups controlled for certain variables of no interest. My contrast matrix is 1 -1 0 0 0 0 0 0 0 0 0 0 to check for group 1 thickness > group 2 thickness I get my sig.mgh and I want to run mri_surfcluster command to correct for FDR.