Task-Based Activation -- ROI analysis
Hi Alfonso, I'm sorry for posting this twice, I realized it may have gotten lost where I posted it initially (in another thread). I'm hoping you can give me some advice. I have some task-based data...
View ArticleAnalysis mask (binary explicit) for limited field of view high-res data
Hello, I am working with high-resolution resting state scans that are not whole-brain (limited field of view to maximize medial temporal lobe resolution). So far, in the SET.UP page, I have the default...
View ArticleEmpty scrubbing parameter files
Dear Experts, After preprocessing step, I found that the scrubbing parameters are empty for many subjects except very few subjects. Why there is empty files? is it not written or data is good? Please...
View ArticleROI networks.nii; left anterior Insula not loaded
Dear Conn-Users, I want to use the Networks provided by Conn. All but one subnetwork (left anterior insula of Salience Network) is available as ROI in the 2nd-level. Any ideas what the Problem is?...
View ArticleI need very basic questions answered re: ConnToolbox and HCP data
Hello, this is a follow-up to my request: As I've not had any email contact from anyone, I am asking again for some help. I don't think this would take more than one single phone conversation to get...
View Articlemotion regression when preprocessing outside of Conn
Dear Conn-Users, I did the preprocessing of the resting state data outside of conn. How can I include motion parameters as confounders in the denoising step? Kind regards Ilka
View ArticleRE: Between-network connectivity values for correlation analysis
[color=#000000]Dear Natasha,[/color] [color=#000000]That data (Fisher transformed correlation values among your eleven ICA-ROIs) should be located in the resultsROI_*.mat files within your...
View ArticleAre white matter and CSF confounds saved as files?
Hello experts, I was wondering if the white matter and CSF confounds generated by CONN and used for denoising are saved as files. Ideally, I wanted to try and use the first principal component from...
View ArticleLeft/right hemisphere connectivity
Hello, I am currently attempting to quantify total left/right hemisphere connectivity recorded from resting state fmri scans in order to compare between two groups. Is there a way to do this in second...
View ArticleSetting up scrubbing in batch script
Hi there, I am attempting to set up a script that will analyze rest data. So far the script works except for scrubbing the data. The data has already been run through fmriprep, so I don't think I...
View ArticleUsing CONN's surface maps
Hello, Is there a way to use CONN's second-level surface maps for volume files created outside of CONN? I'd like to use overlay my (outside-of-CONN) volume files on this surface file. Thank you! Kaitlin
View ArticleInterpreting the plots
Dear Experts, Based on FD, I fount 2 subjects shows more than 3mm movements. During the preprocessing setup, I set the 97th percentile and other values were in default settings. I am finding difficult...
View ArticleTemporal properties of networks dynamics
Dear all, thanks the authors and users for making this toolbox available which i found priceless for non computer intensive users. Now that we all need to stay at home for long, will appreciate advise...
View ArticleRE: Voxel-to-voxel connectivity
Hi Alfonso, That is tremendously helpful, thank you!! I had two follow-up questions: 1) In addition to the 32 networks that you have set as default, I would also be interested in performing analyses...
View ArticleRE: ROI networks.nii; left anterior Insula not loaded
Dear Alfonso, thanks for your prompt reply. I checked the coregistration and it seems find to me. Please find attached the image. Any other idea what the problem could be? Kind regards Ilka
View ArticleRE: Error: NaN's cannot be converted to logicals.
Dear Alfonso, You were right, and the issue has been fixed. Thank you so much for your time and effort. Kind regards, Romke Hannema
View ArticleRE: Are white matter and CSF confounds saved as files?
Thanks for the recommendation, Alfonso. I was able to run the code. It looks to have created a series of .txt files for each run per subject with the prefix "dp_" as you said. One question about the...
View ArticleRE: Summary Dynamic variability measures
Hi all, I was also looking for whole-brain variability across the time series and it never showed up as a condition until I added more windows (slid in increments of 1TR). Now all of a sudden I have a...
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