RE: scrubbing in setup but not denoising
[color=#000000]Hi Alain,[/color] [color=#000000]Not sure about that, have you tried re-running the setup step (in the [i]Setup [/i]tab click 'Done' and select the 'do not overwrite' option to avoid...
View ArticleSurface Based Analysis - Setup Error (??)
Hi, I am performing surface based analyses in CONN using precomputed FreeSurfer surface files. I wrote a batch script to set up my analysis, however when I load the .mat file in CONN and click "Done"...
View ArticleRE: Surface display questions
Hello Alfonso, This works now, thank you. I get the exported .nii file with the results. Back to my initial question then: Could I open the surface view and execute a Print -> Current view from the...
View ArticleRE: conn_batch how to do all 1st-level analyses
Hello Alfonso, Thank you very much for your detailed reply (and for checking my script!). Indeed, I was aware that the conn_process API might change in the future (hence why I tried to limit that by...
View ArticleRE: need help with dynamic FC between conditions
Hello Alfonso, Thank you very much for your reply, I will try your advice for multiple conditions (make one rest condition that includes all subjects). About multiple groups, would the technic you...
View ArticleStrange second level effect
Hi everybody, sorry for posting two thread in such little time, but there is something really bothering me. I am after the association of certain behavioral variables with connectivity of the reading...
View ArticleError in CONN after Denoising
Hi Alfonso, I seem to be having an issue with voxel-to-voxel analysis I'd l like to perform using gPPI. I set up the conditions (via SPM import), functional and structurals (T1's not surfaces) without...
View ArticleGraphic issue on Linux with X11 forwarding
Dear experts, I'm running into an error when I ssh to a linux machine with X11 window forwarding and try to start conn (see pics) Is there a quick workaround for this? Thank you very much for your...
View ArticleA couple if issues: confounds, ART, MVPA stat
Dear Alfonso, dear Colleauges During my experience with CONN a couple of problematic issues appeared and I would be grateful to hear your advice. I really apologize if the list is somewhat long......
View ArticleNaming convention preprocessing COND
Hi Alfonso, Could you help me out by explaining the naming convention used by CONN to store results for different conditions? I had previously processed my data with a single condition, this provided...
View ArticleRE: 2x2 ANOVA setup
Dear Alfredo, after reading several posts I'm still a bit puzzled how to report the results of a mixed-design ANOVA. I set up a 2x2x2 model (group, condition, roi). The 3-way interaction gives me a...
View Article7 T MRI masked ICA
Dear Alfonso, Before starting to process my 7T MRI data, I have several question that I am hoping you can help me out with. We have about 40 datasets of whole brain 7T MRI resting-state data (1.25 mm...
View ArticleRE: 1 -1 comparison between sessions
[color=#000000]Dear Christopher,[/color] [color=#000000]For this design you would typically create two conditions in the [i]Setup.Conditions [/i]tab (e.g. 'control' and 'experimental') and assign the...
View ArticleRE: reporting 3-way interaction
[color=#000000]Dear Bruno[/color] [color=#000000]If you want to use F-stats (and that is typically the best choice for this sort of interaction analyses, unless you have an a priori hypothesis about...
View Articlespm.ps file
Hi Alfonso, Hope you're well, and thank you, as always, for your excellent support. I don't know if this is more of a question for the spm listserv, but when using the latest version of Conn it seems...
View ArticleRE: scrubbing in setup but not denoising
[color=#000000]Hi Federico,[/color] [color=#000000]Just to give me some additional information about your project, could you please do the following:[/color] [color=#000000]a) in the Denoising tab,...
View ArticleRE: Average within / between network connectivity
[color=#000000]Hi Ruth,[/color] [color=#000000]Currently there is a separate script (part of the CONN package but not yet integrated into CONN's gui) that would allow you to perform these sort of...
View ArticleRE: Surface Based Analysis - Setup Error (??)
[color=#000000]Hi Shady,[/color] [color=#000000]Yes, I think so. This error message means that the white matter mask for that subject was empty, again indicating (assuming that the gray/white/csf masks...
View ArticleRE: Surface display questions
[color=#000000]Hi Sami,[/color] [color=#000000]To generate the 'surface display' view from the mask just generated you may use:[/color]...
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