missing value in CONN Quality Assurance: # of voxels in GreyMatter
Dear Alfonso, After completing denoising step in our analysis, the new QA generated as a second level covariate QC_GreyMatter_vol_session1 and other QC for while matter and CSF shows 6 subjects value...
View ArticleRE: subject's specific ROIs from freesurfer
Hello! I have a similar question. I am trying to perform surface-based (rather than volume-based) analysis for the first time. I have preprocessed my data using the default surface-based parameters....
View Articleproblem voxel to voxel analysis
Dear Conn users, I am using conn version 18b. When I am at the first level analysis (voxel-to-voxel) and choose to perform intrinsic connectivity analysis, conn starts to run and processes all the...
View ArticleRE: Problem Loading ROI
Hello, I would like to bump this thread because I am getting the same problem, but with matlab 2018 and Conn 18b. Is it indicating that there are NaN values in the ROIs? Non of my 1st or second level...
View ArticleRemoval of initial scans
Hi all, I have a question regarding the removal of initial functional scans for resting-state analyes. Is there a difference between manually excluding the first X scans when importing functional...
View ArticleBatch processing help!
Hi Alfonso, Sorry to bother you again about batch processing, I've tried everything I can think of but can't figure out this error in my BATCH script. I've updated my version of CONN and I'm using...
View ArticleFIR task regression approach
Hi all, I was wondering what the best way would be to use the FIR task regression approach described by Cole et al. (Cole, M. W., Ito, T., Schultz, D., Mill, R., Chen, R., & Cocuzza, C. (2019)....
View ArticleFIR task regression
Dear all, I was wondering what would be the best way to apply the FIR task regression approach described by Cole et al. (2019, see https://doi.org/10.1016/j.neuroimage.2018.12.054) in CONN. Does it...
View Articlerunning parallel analyses with different scrubbing parameters?
Hi Conn gurus: I want to run two full analyses (through second level) trying out both the intermediate and conservative scrubbing parameters offered in the preprocessing pipeline (using art). I was...
View ArticleRE: ROI-to-ROI various p-FDR corrections question
HI Alfonso. This is a bit confusing to me, even though I know some of the theory behind. Is there any text I can go to see this in more detail? You've explained only part of the options. And it is...
View ArticleOutlier ROI in Seed-Voxel 2nd Level Results?
Hi Alfonso and other CONN users. I'm doing a Seed-Voxel analysis where I have 30 healthy controls and 68 patients (most of whom have baseline and post scans). I computing second level seed-voxel...
View ArticleResults Intrepretation
Hi guys, I got the attached results with the following set-up and would like to know if my intrepretation to the results is accurate or not. Between-subjects contrast selected 'All subjects' &...
View ArticleCan CONN remove lesion artefacts automatically?
HI, My new data has lots of white matter hyperintensities scattered throughout the brain. Since the CONN pipepline regresses out the white matter and CSF, does it mean i don't have to worry about...
View ArticleSeed-based analysis in subject-space
Hello, I have structural T1 images processed with Freesurfer 5.3 that I want to use in Conn along some resting-state fMRI images (which are raw and not processed). I am currently in the process of...
View ArticleTo use weighted GLM or gPPI and why?
Hello, I am new to CONN and connectivity analysis in general and as such wanted to ask a few questions to help guide my analysis. 1: I am doing an event-related design using a Go/NoGo task and am...
View ArticleMerging studies
Is there a way to merge 2 studies with varying numbers of sessions and conditions? Thanks in advance for any help! Ben
View ArticlePlotting Regressions in CONN
Currently correlating behavioral data to resting-state functional connectivity maps, in the overlays the scaling suggests that not r-squared values are being plotted. Are these instead transformed...
View ArticleCan CONN use GPU CUDA cores to accelerate processing
Hi everyone, I'm wondering if the latest version of CONN (18.b) could use GPU CUDA cores to accelerate processing. Please share your ideas and methods, thank you.
View Articledownload ABIDE dataset
Hello everyone, I want to download all of ABIDE DPARSF Preprocessed images ,but I face a problem in download! when I select some subject or select all of subjects ,just images that belong to one...
View ArticleQC_timeseries not in confounds
Hey I really appreciate this forum, I have been able to find answers to questions I've faced several times, and I think that has really helped make CONN a successful and relevant toolbox. I'm running...
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