Hi,

It's hard to tell without more information but one possible guess would be that perhaps your ROIs are: a) not defined in fsaverage space; or b) not extracting BOLD signals from a properly coregistered functional dataset? To check this please provide more information about the specific ROIs used, and/or use the 'ROI tools -> Display slice viewer with functional overlay' menu to check the coregistration between each ROI and the associated functional data.

Best

Alfonso

Originally posted by tposside:

Very similar to this unanswered post but with slight differences: https://www.nitrc.org/forum/message.php?...

 

Basic Problem: After preprocessing and denoising, in the analysis tab, the majority of ROIs are flat-lines with a tiny bit of noise in a particular spot (see image below). There are some ROIs that look good and normal. This is consistent across all subjects (even the placement of the tiny bit of "noise" within the blank ROIs). The signal from the functional files does not look like this for the voxels in these ROIs. 

 

More detail:

• Setup processing options:


• 


• Preprocessing pipeline: default "preprocessing pipeline for surface-based analysis (in subject-space)". The only non-default here was changing the number of diffusion steps for smoothing from 40 to 4. Using Seimens interleaved slice ordering.


• Denoising tab was all default values


• The structural files have been preprocessed using FreeSurfer recon-all before loading into Conn


• Using Conn functional connectivity toolbox 22.a

 

Please let me know if there is more information that would be helpful that I have not provided.

Thank you