[Freesurfer] timecourse overlay

Hi Bruce: Is there a way that I can load the MEG timecourse data on the freesurfer surface? Is it possible that we could get the timecourse waveform for a specific point on the surface? Thanks! Tao ___ Freesurfer mailing list Freesurfer@nmr.mgh.ha

[Freesurfer] slice thickness

Hi All: I have a question about the slice thickness. To get a "good" freesurfer reconstruction, especially the "accurate" statistic analysis, what it the maximum slice thickness can I use when acquire the DICOM image? Thanks! Tao ___ Freesurfer mail

[Freesurfer] Re: slice thickness

Hi All: I am trying to use qdec to do group analysis. I composed a qdec.table.dat file as follows: fsidgender age KGFemale 25 LF Female 25 JEP Male 28 JK Male33 When I tried to load the data in qdec, I got following error message: ncols =

[Freesurfer] measurement of cortical thickness

Hi All: I am trying to measure the cortical thickness of specific ROI. I got a ROI, and are able to save it to a label file. Should I use mris_thickness to measure the thickness? If so, how do I get the thickness file, using mri_label2vol? Thanks in advance! Tao _

[Freesurfer] group analysis using mri_glmfit

Hi Bruce and Nick: I am trying to do group analysis using mri_glmfit. It seems that I have no problem to run mri_glmfit and get the glmdir and all the files. When I load sig.mgh with average surface in tksurfer, I can configure the overlay. When I try to load group descriptor file, a window po

[Freesurfer] export mgz+label to dicom files

Hi All: After imposing labels to a T1.mgz files in tkmedit, is it possible to write out dicom files with the label? Thanks in advance! Tao ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/fr

Re: [Freesurfer] export mgz+label to dicom files

Hi Doug: Is it possible to write out nifti or mgz files with labels+T1.mgz? Thanks! Tao Doug Greve wrote: Sorry, we do not have an option to write out dicoms. doug T. Song wrote: Hi All: After imposing labels to a T1.mgz files in tkmedit, is it possible to write out dicom files with

Re: [Freesurfer] export mgz+label to dicom files

x27;m not sure what you mean by "labels+T1". Also "labels" can mean a lot of different things (eg, aseg, aparc, label format). Can you be more specific? T. Song wrote: Hi Doug: Is it possible to write out nifti or mgz files with labels+T1.mgz? Thanks! Tao Doug Greve wrote

Re: [Freesurfer] export mgz+label to dicom files

overlay together. doug T. Song wrote: OK. Say, I have a label file saved from a user defined ROI in tksurfer (ascii label). I superimpose the label with a T1.mgz file in tkmedit. Now I get a T1 weighted image with predefined ROI highlighted. Can I save the whole series to a nifti or mgz file

[Freesurfer] save a base image with an overlay together

Hi Doug: Which command should I use to save a base image with an overlay together? Thanks! Tao T. Song wrote: Thanks! I was able to create a binary mask, and the result looks good. Now how do I save a base image with an overlay, in tkmedit of which command? Tao Doug Greve wrote: You

[Freesurfer] xfm_read

Hi Bruce: I have a question regarding the command xfm_read. Should I use the 'talairach.xfm' under subject/mri/transforms/ as the input file? It seems that there is transformation matrix in it. Now, in tksurfer, if I click a point in the surface, I will get a "vertex RAS" xyz, and a "vertex Ta