Variability of timecourses higher in right hemisphere compared to the left...
Hello, After a week of desperate troubleshooting, any advice on the following matter would be welcome. I preprocess my data in SPM and use conn for denoising and extracting timeseries for my ROIs...
View ArticleRE: Explanation of Outputs
Hello, I'm trying to find the output file which contains the time series for each voxel, after denoising. In the 1st level analysis in the GUI, I have the option of clicking on a given voxel for a...
View ArticleImporting BIDS dataset uncompressed NIFTIs
I have noticed an error in the newest CONN version (20b). When starting a new CONN project and importing a BIDS dataset containing uncompressed NIFTIs (NOT gzipped), the copied files (whether it is...
View ArticleRE: Single-Subject First-Level r map in nifti
Hi, Hoping to follow up on this. The BETA map does not seem to match the preview in the 1st level of analysis in the CONN GUI (after selecting the same patient and seed). The BETA map appears noisier,...
View ArticleIssues running Denoising
Dear Conn Users, After successful preprocessing in Conn, I'm running into an error at the demonising step. How can I solve it? Many thanks, Aleksandra CONN: RUNNING SETUP STEP Step 1/7: Checking data...
View ArticleRE: HPC - SLURM - Parralellisation with conn
Dear Alfonso, I tried to run the analysis on 1015 subjects. The script led to 100 jobs, as I wanted. However, it seems that there is an issue with the filename ans the jobs stop running. What is...
View ArticleWhere can I find denoised 4D nii images?
Hello, I am new to Conn and really appreciate this forum for guidance. I am wondering where I can find the 4D nii file after the Denoising step has been performed (i.e. the image after aCompCor,...
View ArticleError when plotting QC-FC and distance figures
Hi all, I am analyzing data in fsaverage surface space. I am attempting to plot the QC-FC figures and am getting the following error, specifically for the QC-FC distributions. I get a similar error...
View ArticleDesign Setup in CONN
Hello All, I have come up with a query and I seek your help please. I am struggling with rfMRI data analysis in CONN. I basically have data for 22 subjects acquired at two conditions and two visits. So...
View ArticleMultiband resting state scan preprocessing with 1.5s TR
Hi Alfonso and everyone, I am analysing rsfMRI data acquired interleaved and multiband (TR=1.5s (500 datapoints), MB factor=4) using 3T Siemens PRISMA scanner. I read around this forum and talked to...
View ArticleICA: number of components Cutpoints; CompCor
Dear Alfonso and Conn users, I recently submitted a paper about resting state fMRI using Conn and in particular Independent Component Analysis to compare patients and controls. I have 2 questions of...
View Articleimporting existing connectivity matrices in CONN
Hello, We are new to CONN. We would like to use CONN for the visualization of already analyzed resting-state fMRI results. We have already processed rs-fmri data, and constructed matrices of ROI...
View ArticlePlease help me answering these statistics questions related to CONN
Hello all, I have analysed resting fMRI data using CONN by looking at around 10 ROIs and see how they differ in terms of their connections to all brain regions (so seed to seed analysis). I used the...
View ArticleError message - Reference to non-existent field 'X1'.
Hi, This is the first time I am using CONN for the rsfMRI data analyses. My target is to generate a functional connectivity matrix containing correlation value between ROI-to-ROI. My rsfMRI image...
View ArticleRE: what is the " normalization" in ALLF or LCOR?
[color=#000000]Hi Kim,[/color] [color=#000000]The 'normalization' option in any voxel-to-voxel first-level analysis refers to an optional within-subject normalization step, where the raw values at each...
View ArticleRE: Import condition text file format
[color=#000000]Hi,[/color] [color=#000000]CONN's condition-file format expects the '[b]subject_number[/b]' column to contain numbers rather than strings/subject-id's (e.g. attached, but please...
View ArticleRE: ICA results as seeds for seed to voxel analysis?
[color=#000000]Hi Benxamin,[/color] [color=#000000]Yes, that's a perfectly valid approach, simply keep in mind that the secondary analyses are 'post-hoc' analyses so it is perfectly fine to use them to...
View ArticleFunctional connectivity network ROI FDR and not FWE
Hi all, I would like to ask why is the cluster based inferences on the functional network connectivity is set to FDR corrections and not FWE? Thank you Aser
View ArticleRE: conn_updatefilepaths error
[color=#000000]Hi Alex,[/color] [color=#000000]Sorry the automatic update in "conn_updatefilepaths" is meant for cases where the data is simply moved to a different folder/location, but it is not able...
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