Loading second-level connectivity results
Hello CONNers, I have 2 rsfMRI groups (second level covariate in CONN pipeline) I want to view 2nd-level rsfMRI results just to see basic brain activations at rest (non-connectivity results) so that I...
View ArticleIs it possible to use NBS in graph theoretical analysis in Conn?
Hi, I am using the NBS tool in the Roi to ROI analysis, and so far it is being really useful in a small sample size in which a lot of ROIs are used. I wonder if there is any way to employ this method...
View ArticleRE: CONN compatibility with BIDS and fmriprep output
Hi Karolina, What did you do to recreate the ART outlier detection process outside of CONN? I am also using fmriprep to preprocessing and CONN for resting state connectivity analysis. Alfonso, would...
View ArticleRE: Error importing results to CONN project
Hi Alfonso, do you have any idea what could be the reason for this error? Thanks, Boris
View ArticleHPC Parallelization Options Not Showing Up in CONN18b
Hi, We are just starting to use CONN18b and are having trouble getting our saved SLURM Configuration to show up when we try to do different steps, such as Preprocessing and Done on the setup page. I've...
View ArticleTrying to obtain a Connectivity Matrix
Hi, On the 'ROI-to-ROI explore gui', I need to select 'network of source ROIs' but the only option that shows up to me is 'Targets are source ROIs only'. And I can't select the following steps to try...
View ArticleParametric modulator
Dear experts, I am new to this forum and have not used the CONN toolbox before. I would like to run a PPI analysis with a parametric modulator, a triel-by-trial rating. I got two questions related to...
View Articlepreprocessing error in CONN requiring manual realignment
Is there any documentation for how to do manual preprocessing of the data? I used the pipeline, and that worked for the majority of my participants, however after various QA measures it's clear that...
View ArticleExporting CONN 3D model with blobs e.g. to make a GIF
Dear Alfonso and others, First of all, thank you very much for the great tool that CONN is - so intuitive and versatile! Among the functions I appreciate a lot about the latest versions, is the 3D...
View ArticleCan I use ROI-level covariates?
Hi Alfonso, I use patient-specific ROIs (stroke lesions), and I want to compare ROIs from patients with good versus those with poor outcome. Patients can have multiple lesions/ROIs, however (e.g. if...
View ArticleMaking graphs with connectivity values and clinical correlations
Dear Alfonso and all Hope my message finds you well, I recently have been investigating the impact of pain on connectivity in a cohort of patients using multiple linear regression models in CONN (i.e....
View ArticleDifferences in group size--compare within-group variance?
Hello Alfonso and others, I've run a few second-level ROI-to-ROI analyses (mostly 2-sample t-tests) involving comparisons between different combinations of four participant groups with different sizes...
View ArticleCalculation of FDR-corrected p-values
Hi there, I'm trying to calculate FDR-corrected p-values from the p field in my ROI.mat file. The p field in this file contains p-values which are equivalent on each side of the diagonal, as expected....
View ArticleExport t-values from seed-to-voxel results
Hi everyone, I've run a seed-to-voxel analysis and now I'm trying to export t-values. Is there a way to export them directly from conn results explorer without opening SPM for each result? Thank you...
View ArticleMany repeated scans per subject, design question
Hi, I have a dataset of 8 subjects, who were each scanned on between 13 and 50 occasions. I am interested in the impact of a couple of DAYILY measures that vary between the different scan days. At the...
View ArticleRE: Changing data's location
I was wanting to know this as well. I couldn't get the conn scripts to work right. I found a different way by experimenting and is simple as heck. The reason I needed to change path names, is I updated...
View ArticleMultiple functional files per subject on batch script
Dear all, I'm trying to script a conn batch to preprocess data with the following characteristics : 214 subjects 134 functional files (.nii) per subject 1 structural file per subject 1 session per...
View ArticleProblems batch importing l2covariates
Hello All, I am having trouble importing second level covariates. My batch script runs fine and all the data and conditions and first level covariates will load, but not the second level covariates. I...
View ArticleRE: Differences in group size--compare within-group variance?
[color=#000000]Hi Jeffrey,[/color] [color=#000000]This is an interesting question, and the reviewer is correct to point out that evaluating the difference in the number of significant/supra-threshold...
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