[Freesurfer] Command cannot recognise session from sessid file

t it cannot find the session. [image: tree.png] Inside each subject folder, there is the "bold" folder and inside that, together with the runs folders, there is the analysis folder. Any idea on what I'm doing wrong? Thank you so much, Marco -- -----

[Freesurfer] comparison within same subjects for different conditions

ere any other ways to compare activations on the same subjects in different conditions? Thank you for your patience and your help, Marco -- --- Marco Ninghetto, PhD candidate Laboratory of Neuroplasticity Nencki Institute of Experimental Biology Polish Acade

Re: [Freesurfer] group analysis for same group in 2 conditions

de the FSGD in such a way that FREESURFER would know it has to compare the same subject two times in two different conditions. Command is: mris_preproc --fsgd RetinotopyStudy --target fsaverage --hemi ?h --out > ?h.out.retinotopy Thank you for your effort in solving this matter, Marco On Fri, 28 F

Re: [Freesurfer] group analysis for same group in 2 conditions

m the retinotopy analysis do you want to compare across > subjects? Eg, the phase? Can you send your mkanalysis-sess command? > > On 2/28/2020 8:17 AM, Marco Ninghetto wrote: > > External Email - Use Caution > Dear experts, > I'm performing a study on visual pathw

[Freesurfer] group analysis for same group in 2 conditions

in the right way. The question is: how would I organise the FSGD file or folders in such a way that FREESURFER would know that it has to compare results from the same subjects but from two different folders (analNG vs analYG)? Hoping that's clear, I really look forward to hear from you

Re: [Freesurfer] Retinotopy analysis results interpretation

External Email - Use Caution Sorry, this is the actual link to the images: https://drive.google.com/open?id=1SLPgXmPiqHCyKLHcxKYonyHBl_3pdFzS Marco On Thu, 6 Feb 2020 at 14:44, Marco Ninghetto wrote: > Dear FREESURFERs, > I'm performing retinotopy analysis. I p

[Freesurfer] Retinotopy analysis results interpretation

nCUHZyFlqtzevV7d-xyg> Any help on interpreting these results would be much appreciated. Thank you, Marco -- ------- Marco Ninghetto, PhD candidate Laboratory of Neuroplasticity Nencki Institute of Experimental Biology Polish Academy of Sciences 3

Re: [Freesurfer] Retinotopy, design ill-conditioned

o compute calculations on these stimuli? Moreover, now I acquire only one functional img for each stimulus. Do you recommend me to do more runs? (maybe having only 1 run causes the issue). Thank you for your help! Marco On Tue, 21 Jan 2020, 16:16 Greve, Douglas N.,Ph.D., wrote: > Actua

[Freesurfer] selxavg3-sess design ill-conditioned

t; ans = > 1 > >> -- > ERROR: fast_selxavg3() failed\n I'm stuck with analyses and I cannot proceed further. Could you provide some insight on what to do? Having only two long lasting cycles, do I have to use further optional flags in

Re: [Freesurfer] Retinotopy, design ill-conditioned

co On Fri, 3 Jan 2020 at 17:51, Greve, Douglas N.,Ph.D. wrote: > Can you send your paradigm files? Can you also send the terminal output? > One more thing, can you send the X.mat file from the output folder? > > On 1/2/2020 3:19 AM, Marco Ninghetto wrote: > > External Ema

Re: [Freesurfer] mkanalysis-sess.new not found

version? > > On 12/31/2019 5:45 AM, Marco Ninghetto wrote: > > External Email - Use Caution > Dear experts, > my name is Marco and I'm using freesurfer to perform retinotopy analysis > and I am having a problem with command: > > `mkanalysis-sess.new`

[Freesurfer] Retinotopy, design ill-conditioned

solve the error. My retinotopy stimuli make 2 cycles (e.g.: rotating wedge makes 2 full cycles before quit) and each cycle takes 200 seconds to complete. TR is set to 2.5 seconds. Please, does anyone have any advice? Thanks in advance, Marco -- ---

[Freesurfer] mkanalysis-sess.new not found

s.new: command not found` All the previous steps worked well. Why is this command unrecognized? Thank you all, Marco -- --- Marco Ninghetto, PhD candidate Laboratory of Neuroplasticity Nencki Institute of Experimental Biology Polish Academy of Scien