Identical Input, identical preproc, different output
Hello, I associated by mistake the same functional data with different subjects in the setup step, as well as the same structural file. What surprise me it is that with the same preproc* applied on all...
View ArticleRE: conn model set up
Dear Yoga, If you created two rest sessions in the Conditions tab, and you assigned the fmri to the two sessions respectively (first session for first timepoint, second session for second timepoint), I...
View ArticleCONN REX incorrect mean effect size?
Dear Alfonso, Not an urgent matter, but I think I have found a bug in REX, and I have no idea why it happens. Please look at the following two images, they represent the same data: * Generated via CONN...
View ArticleRE: Cluster extent thresholding of first-level connectivity maps
Dear Kasia, First thank you for your script! I am not exactly sure how CONN generates the p-FDR maps at 1st-level, I tried with my own scripts and even p-uncorrected threshold is too high to keep any...
View ArticleRE: decreased temporal SNR after preprocessing and denoising
Hi experts, Regarding this issue, I realized that the images that conn generates as the confound-regressed time-series (in /connjobfolder/results/preprocessing/niftiDATA...nii) are somehow different...
View ArticleRE: Identical Input, identical preproc, different output
Hi Stephen, 1st-level covariate are the same for each subject.
View ArticleRE: Error at 1st level: incorrect # ROIs
Hi Nicole and Stephen. Suzanne here. I did some trouble shooting back in December when I first got the error. Below are my findings: 1. The error was not caused by the late addition of an ROI. When I...
View ArticleRE: preprocessed images
Hi, I also got similar images after preprocessing. My concerns are that when I compute temporal signal to noise ratio (tSNR), it is lower thant the originals one. The preprocessed smoothed tSNR is...
View ArticleConn batch preprocessing error
Hello, I am using the conn_batch script to analyze ~150 subjects. Unfortunately, I think one of my subjects has bad data, because the script errors out with this message: Completed : 09:35:02 -...
View ArticleCorrelations
Hi! Given two groups coded as "patients" and "controls" and "patients_rating" and "controls_ratings" (symptoms scores), what is the difference between: Selected only "patients_rating" in between...
View ArticleStorage space
Hello I am wondering about CONN storage capacity. It says storage: available #% at the bottom of the CONN window. Is there a limit to the number of subjects you can run? I have 860 subjects I need to...
View Articlemodel set up and conditions
Good Morning Stephen and all the experts I am trying to set up a model for 12 patients before and after intervention. But ic cannot go forwards as the model set up does not let me change any of the...
View ArticleError during importing functionla data step
Hello, Any help on this error? ERROR DESCRIPTION: Error using spm_sample_vol File too small. Error in spm_get_data (line 44) Y(i,:) = spm_sample_vol(V(i),XYZ(1,:),XYZ(2,:),XYZ(3,:),0); Error in...
View Articlehow to setup conditions 'pre' & 'post'
Hi, I'm new to use conn toolbox, and I want to conduct analyzing pre vs. post training resting-state fMRI data. (We trained subjects for 12 days). 1) As I followed a manual, I setup number of...
View ArticleIndex exceeds matrix dimension in Cat12 and spm12
Hi , I am working with spm12 and cat12.when i tried segment data in cat1 2 with my nii file i am getting error Failed 'CAT12: Segmentation' Index exceeds matrix dimensions. In file...
View Articleuse smoothed data for ALFF analysis
Hi All, I am trying to use preprocessed resting-state fMRI data by CONN toolbox for ALFF analysis. In "denoising" part, I chose bandpass filter. So I wonder the smoothed data"swua*.nii" is before or...
View ArticleChanging files references on the Setup Page
Dear All, please let ask me again one small question. I have a conn defined pipeline that has been already preprocessed. The structural and functional files on the setup page have been automatically...
View ArticleROI-to-ROI second level analysis: Error
Dear friend, I was doing the second-level analysis of ROI-to-ROI, but I encountered with the below problem: ERROR DESCRIPTION: Matrix dimensions must agree. Error in conn_process (line 4478)...
View Articler value in linear regression
Hi, to explore the correlation between functional connectivity and a variable i use a contrast [0 1]. it is possible to have the value of r in linear regression? thanks dom
View ArticleRE: Average within / between network connectivity
Dear Alfonso, Reviving an older thread as I am using this code line for my analyses, as I was interested in network connectivity changes related to covariates and groups. I have a couple of questions....
View Article