[Freesurfer] cluster analysis in longitudinal analysis

2017-06-19 Thread Livia Liu
Dear FS experts, I are analysing longitudinal data - the difference of the cortical thickness, surface area and volume between 2 groups (1 and 0) with 2 time points for each group (0, 1 --all the same time interval: a month). I followed the page http://surfer.nmr.mgh.harvard.edu/fswiki/LinearMixe

Re: [Freesurfer] LME correction in longitudinal analysis

2017-06-19 Thread Livia Liu
Dear Martin, Thank you so much for all the help that you had given me. Kind regards, Livia ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is in

Re: [Freesurfer] Cortical thickness differences displayed on surface

2017-06-19 Thread Ismail Koubiyr
Dear all, Would anyone have any idea how to display these p-values for each lobe on a surface ? Thanks a lot. Ismail 2017-06-15 15:02 GMT+02:00 Ismail Koubiyr : > Dear all, > > I have performed cortical thickness analysis with FS 5.3 and have found > some differences in some areas ( I have use

Re: [Freesurfer] WM Volume

2017-06-19 Thread Bruce Fischl
nope, as long as the white surface is accurate you should be all set. cheers Bruce On Mon, 19 Jun 2017, Michael Davies wrote: > > Hello, i am currently looking at the WM Volume in heat mode and am curious > as to if i need to fill in all the small missing voxels located within the > boundary

Re: [Freesurfer] Hippocampal sufields

2017-06-19 Thread Iglesias Gonzalez, Eugenio
Dear Erik, As of today, we don’t have a subdivision of the molecular layer. An option would be to use some geometric/heuristic rules to subdivide the molecular layer, but we haven’t implemented anything like that. Cheers, /Eugenio Juan Eugenio Iglesias ERC Senior Research Fellow Translational Im

[Freesurfer] No keyboard input accepted in freeview and tkmedit

2017-06-19 Thread Caspar M. Schwiedrzik
Hi! I have a weird issue where tkmedit and freeview both do not accept any keyboard input. This is Freesurfer v5.3 running on Centos 7, connecting via RDP. I saw a couple of posts by other users having this problem, but I could not find any solutions/replies on the mailing list. Does anyone know ho

[Freesurfer] WM Volume

2017-06-19 Thread Michael Davies
Hello, i am currently looking at the WM Volume in heat mode and am curious as to if i need to fill in all the small missing voxels located within the boundary as well as the bigger holes? Kind regards, Michael ___ Freesurfer mailing list Freesurfer@nm

[Freesurfer] Left Cerebellum Exterior and Right Cerebellum Exterior mean value generation

2017-06-19 Thread M Janani
Hi freesurfer team, I apologize, I am new to freesurfer. I'm doing analysis on PiB. I have successfully got my .stats files by running the recon-all command. When I checked for Left Cerebellum Exterior and Right Cerebellum Exterior value in the

[Freesurfer] PhD-position | clinical MR-physics | Germany

2017-06-19 Thread Theodor Rüber
Dear colleagues, Please note the following PhD-student job offer: http://www.ukb.uni-bonn.de/42256BC8002B7FC1/vwLookupDownloads/PhD_EPI_Rueber.pdf/$FILE/PhD_EPI_Rueber.pdf This is a highly attractive position between the fields of MR-physcis, clinical research and neuroradiology as part of a res

[Freesurfer] qdec FindClustersAndGotoMax Plot ERROR

2017-06-19 Thread Hossein Rejali
Hello, I'm fairly new to freesurfer, I've been going through the tutorials to get my hands dirty. Currently on the Surface Group Analysis with Qdec tutorial, when applying the FindClustersAndGotoMax, the command line generates the cluster stats but underneath prints: invalid command name "Fsgd

[Freesurfer] Hippocampal sufields

2017-06-19 Thread Erik Lindberg
Dear Freesurfer experts, I am currently running your new pipeline for hippocampal subfield segmentation. However the resolution on my MRI images is too bad for identifying specific cellular layers such as stratum moleculare. My preferred option would be not to divide the different subfields into

[Freesurfer] QModeling: a multiplatform, easy-to-use and open-source toolbox for the pharmacokinetic analysis of PET studies

2017-06-19 Thread José Paredes Pacheco
Dear Freesurfer users, We have created QModeling: a multiplatform, easy-to-use and open-source toolbox for the pharmacokinetic analysis of PET studies. We think this will be useful to many of you if you use SPM. The relevance of this kind of analyses for the study of normal and pathologic brain p