RE: Implementation of graph theory in task fMRI
Dear Alfonso, I Only encountered your helpful response now for some reason. In order to capture some graph-like characteristics, or at least to get a bigger picture of the task-induced connectivity, I...
View ArticleCONN for PET
Hello, I've been wanting to use CONN for connectivity analysis for dynamic BPnd PET images coreg with MR? A guide or some relevant resources would be highly appreciated. Thanks!!
View ArticleRE: Combining Seeds
Dear Humza and Pravesh, I am interested in this too. I would like to create a limbic system network made up of a few core seeds (i.e., amygdalae, ACC, accumbens, hippocampus etc) and use this network...
View ArticleShould one manually include QA_invalid and MaxMotion scans in the design matrix?
Dear all, I have two groups (autism/control) that I had defined as 2nd level covariate in setup. Now in the 2nd level analysis, to see ROI-ROI connectivities of each group I simply select it from the...
View Articleconn merge via Matlab script
Hi there, I'm currently running CONN on a HPC cluster that does not have GUI capabilities. Specifically, I ran seed-to-seed and seed-to-voxel first level models on all of my subjects in parallel across...
View ArticleConverting Individual Connectivity (Z-Matrix) Values to a Dataframe
I have exported the Z variable from resultsROI_ConditionXXX that is a 3D array of the correlation values of all possible combinations of source and target ROIs, with dimensions 48 x 165 x 27 (48 source...
View ArticleRE: Error : covariates 2nd level - Index exceeds number of array elements
Dear CONN experts, I ran into the exactly same error that Vasudev had. I have 100 subjects. After preprocessing was finished (the display said "Preprocessing was finished correctly"), I opened the "2nd...
View ArticleAdding FA index as a co-variate
Dear All, Using Task-based gPPI (Seed-to-Voxel), I am working on a combined DTI-fMRI study for two groups (YOUNG and OLD). My main interest is to see how ageing (as indexed by FA) could account for...
View ArticlePre-Post with multiple contrasts
Let's say I have the following conditions:[code]visual[/code][code]auditory[/code][code]pre[/code][code]post[/code]and I would like to compare "visual (pre)" to "visual (post)", and then "auditory...
View ArticleUsing preprocessed files from SPM
Hello, I have some past rs-fmri data which has been given to me which has previously been preprocessed in SPM8. The functional images have been normalized to MNI space and are slice-time corrected. The...
View Article2nd level contrast
Dear All, We have 1 session for control group and 2 sessions(pre and post treatment) for Patient group. We want to compare functional connectivities (seed to voxel) among those three dataset...
View Articlesetup design : 10 x 6 runs resting
Hello I am new to CONN. Very powerful toolbox I watched the various tutorials, yet did not understand how to setup the design any help is highly appreciated ! in short 10 participants x 6 runs...
View ArticleRE: Should one manually include QA_invalid and MaxMotion scans in the design...
[color=#000000]Dear Zahra,[/color] [color=#000000]That is perfectly fine. Generally you do not add control covariates such as QA_invalid and/or QA_MaxMotion to your second-level analysis models unless...
View ArticleRE: Error when working with Conditions
[color=#000000]Hi John,[/color] [color=#000000]That error perhaps indicates that you may have not yet entered your functional data into your CONN project (so CONN does not know yet how long your...
View ArticleSiemens sequential ascending slice order / slice timing
My data are collected on a Siemens Prisma Fit using a sequential ascending slice order. There doesn't seem to be a way to convince conn toolbox that this is correct for my data. I've tried using the...
View ArticleRE: Analysing specific frequency bands
Hello! Would be grateful if someone has any suggestions on how to go about this. Thanks!
View ArticlefMRI preprocessing error
Hello all I'm new to conn and fMRI connectivity analysis (I've benn working with resting state fMRI) I'm trying to process 25 subjects and the following error keeps popping up in the pre processing...
View ArticleRE: conn merge via Matlab script
This is just what I needed, thanks so much Alfonso! Re. the better idea of sending HPC jobs out using the CONN batch commands, is this possible even if I have to ssh to the cluster?
View ArticleInterpreting Mask Outputs
Hello Conn community, I'm having trouble interpreting the conn mask outputs. I understand that the .hdr and .img files it outputs should be thresholded ROIs, but I'm having difficulty with the numbers...
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