Repetition of prepossessing steps in 2018b version
Dear Experts, I am using conn2018b. I did processing steps with default pipeline for my resting state fMRI data. I entered 34 interleaved slice orders at the beginning manually. After all...
View ArticlePending jobs after SGE processing
Hi all I've performed the Setup step using a SGE computing environment to separate into several jobs (n=20, total of 180 subjects). This runs smoothly, jobs are (apparently) merged, and I can move on...
View ArticleReporting correct T- or Z-Statistics
Hi, in typical fMRI analysis we report z- or T-scores that are reported in the whole brain statistics under SPM. In Conn, however, I am wondering how to correctly report T- or Z-scores and how I can...
View Articlemap surface to volume
Dear expert, I have done a ROI surface-based connectivity analysis with CONN, using for every subjects their FreeSurfer native ROIs . After all the preprocessing I computed In the firstlevel folder...
View ArticleSecond-level covariate of interest with gPPI
Hi Alfonso! I have a quick question with gPPI and covariates I would like to confirm the answer with you. [u]My design:[/u] 1) I have a 4 conditions (2x2 factorial design) repeated measures. I am...
View ArticleSeed to voxel report
Hi, I have done a seed to voxel analysis recently. I have a basic question about how to report the result. My seed was a hippocampus structural mask and I compared its functioncal connectivty with the...
View ArticleHow to get values of functional connectivity’s strength
Dear Experts, I used CONN version 18b. I want to get values of functional connectivity's strength shown by attached file. I can see YData from properties editor, but I can't copy YData. Any suggestion...
View ArticleConnectivity in Subject Space
Hi CONN Users, I have reconstructed the structural image for each subject using Freesurfer. Also, I have an atlas for each subject and want to process connectivity using each subject's atlas. What...
View ArticleRE: How much variance is removed after preprocessing/denoising?
Hello! I just wanted to follow up on this question since I'm still unsure about it. Thanks! Kaitlin
View ArticleError in Preprocessing
I have received an error message I have not seen before in preprocessing of data in Conn version 18.b. I am running the standard preprocessing pipeline, and after the first step (Functional realignment...
View ArticleWhy denoised rfMRI data have normal density
Hi, After performing essential preprocessing steps (slice timing, realignment, co-registration, segmentation, normalization, and smoothing) in SPM12, I loaded the normalized T1 image and also...
View ArticleRE: Seed Based Analysis - Conceptual Question
Hi, I'm bumping up my questions below in the hopes someone can offer clarification! Kindly, Paul [i]Originally posted by Paul Cernasov:[/i][quote]Dear CONN Users, Grad student here. I'm running...
View ArticleMeasure spatial overlap between networks
Hello, I have two resting state networks of interest (using a seed to voxel approach), and I am wondering if there is a way to measure the magnitude of spatial overlap between the two networks (i.e.,...
View ArticleHow to remove first-order derivatives of realignment parameters in...
[b]onDear CONN developers,[/b] Thank you for your great toolbox, I really enjoy using it! I have a problem regarding the editing of CONN_batch_humanconnectomeproject. Since HCP has included the motion...
View ArticleRE: how to do functional preprocessing and denoising only with structural...
Hello, Did you figure out what the issue was? I'm running into a similar issue, although it gets through importing ROI data and then throws the error. Ariana
View ArticleCONN stalls while importing functional data
Hi all, I'm using the script below, it is based on the conn_batchexample_singlesubject.m Although it starts successfully, it stall while importing the functional data. When performing the same steps...
View ArticleRE: Error while importing ROI data
Hi Boris, I thin the error is in this line mismatched number of scans and covariate datapoints ([2 1] vs. [800 16]) You seem to have loaded only two functional files, but your 16 covariates are 800 TR...
View ArticleRE: Extracting ROI info into correlation matrix
Hi, sorry for the late reply - I haven't tried, been stuck on more basic processing issues. Best to try Raphael directly, he can certainly help! Best of luck, Eugenio
View ArticleRE: Pending jobs after SGE processing
Nevermind, I solved it. This was something completely unrelated to CONN, but rather how our local SGE interacted with MATLAB. Cheers Eugenio
View ArticleRE: PET-data
[i]Originally posted by Duncan Green:[/i][quote]Hi Andreas, My lab and myself have been doing this for the past while. PET data obtained from various ROIs around the brain are entered in as...
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