Re: [Freesurfer] Error - extracting percent signal

2015-12-02 Thread Danielle Miller
esubmit this email with the previous correspondence? On 12/02/2015 01:14 PM, Danielle Miller wrote: > Hi Doug, > > Thanks for the response. I used the mri_label2label command: > mri_label2label --srclabel --s fsaverage --regmethod vol > --paint dmax --trglabel --hemi lh > > W

Re: [Freesurfer] Error - extracting percent signal

2015-12-02 Thread Danielle Miller
Hi Doug, Thanks for the response. I used the mri_label2label command: mri_label2label --srclabel --s fsaverage --regmethod vol --paint dmax --trglabel --hemi lh When I input the output from this into mri_segstats as the --seg volume, I get the error: mri_read(): couldn't determine type of file

[Freesurfer] Error - extracting percent signal

2015-11-24 Thread Danielle Miller
Hello freesurfer experts, I am trying to extract an average percent signal change from a functional roi label I created in tkmedit using fsaverage. I followed previously discussed methods: 1) mri_label2vol --label --temp fsaverage/mri.2mm/orig.mgz --regheader fsaverage/mri/orig.mgz --o 2) I ch

[Freesurfer] selxavg3-sess error empty conditions in paradigm file

2015-11-18 Thread Danielle Miller
Hello Freesurfer Experts, I am reposting this as this has not come up on the mail archive thread. I keep running into the following error (see below) when selxavg3-sess gets to my third subject. I am assuming this is because this subject does not have all of the conditions modeled (that is, this

[Freesurfer] selxavg3-sess error

2015-11-16 Thread Danielle Miller
Hello Freesurfer Experts, I keep running into the following error (see below) when selxavg3-sess gets to my third subject. I am assuming this is because this subject does not have all of the conditions modeled (that is, this particular subject does not have any incorrect responses). Is there a way

[Freesurfer] hippocampal subfield viewing

2015-10-27 Thread Danielle Miller
Hello, I used recon-all -hippo subfields on an earlier version of free surfer (recon v 5.0, hippo v5.0 or 5.1). There is no documentation on your website on how to view the subfields in freeview with versions earlier than 5.2. I noticed when I load all the subfields into free view and use the colo

[Freesurfer] mri_glmfit help

2014-01-16 Thread Danielle Miller
Hi Freesurfer Experts, I have some questions regarding mri_glmfit - some basic and some not so basic - that I hope you can help me with. 1.) I want to do a thickness analysis looking at the effect of a continuous variable on thickness while regressing out effects of both continuous and categorica

[Freesurfer] optseq2 using dependent trials

2012-11-28 Thread Danielle Miller
Hi Freesurfer, I have a paradigm in which the conditions are dependent on each other. That is, trials (e.g., congruent or incongruent) are linked to each other in that I want an equal number of trials to follow each other (e.g., congruent- congruent, congruent- incongruent, incongruent-congruent,