How does CONN conduct a gPPI analysis with bivariate correlation measures?...
Dear Alfonso, I am interested in coducting a seed-to-voxel gPPI analysis, which as I understand is typically implemented with bivariate regression measures. However, since this configuration measures...
View Articledisplay error in CONN
Dear Experts, This is Minqing Jiang from MIT. I'm currently use CONN for Macaque fMRI analysis. After I finished 2nd level analysis, the program was killed when I choose slice display. I'm also...
View ArticleOpen/find a folder on the network server in CONN
Dear experts, I am trying to find/open files on the network server (Mac), but it seems like the CONN toolbox could not read those files on the server (i.e., I can only see "Macintosh HD," but not the...
View ArticleError in voxel-to-voxel 1st level analyses
Hello everyone, I am trying to run an ICC on a subset of subjects in a project. I've been getting this error when running the 1st level analyses (filepath name edited for clarity): ERROR DESCRIPTION:...
View Articleskip segmentation
Hello! My data are already preprocessed and denoised so I'd like to skip the Segmentation step. However, not defining the batch.Setup.structurals field results in the following error: Step 2/7:...
View ArticlePaired t-test
Dear Alfonso, We would like to compare 2 resting-state conditions which were acquired before and after meditation in the same subjects. We have in total 49 subjects and we constructed a 280 x 280 x 98...
View ArticleHelp - run CONN at a HPC slurm system
Hello everyone, I wanted to run pre-processing and denoising at CONN, but through a cluster (High-Performance Computing). However, the cluster only allows me to use CONN by job submission (in the...
View ArticleCONN not opening previously analyzed data
Hello, I analyzed my data a week ago but now that I am trying to reopen them to run different analyses I get the following error. Interestingly, It does appear to only open from the "open recent...
View ArticleCONN 32 network parcellation ROI breakdown for networks.nii
How does CONN organize the 32 network parcellations during processing? Is it by ROI or by predefined parameters of how each network should be defined? For example, I would like to know if...
View ArticleStructural Preprocessing
This is my first time using CONN and it seems that my structural preprocessing failed but I cannot figure out where or how to fix it. My structural scans were not skull stripped and the MNI boundaries...
View Articlepreprocessing multiband
Dear CONN toolbox experts, I want to analyze [b]multiband [/b]resting images (for longitudinal analysis, 2 groups 2 times) with a TR = 1.121 and I have two questions regarding the preprocessing: 1)...
View ArticleError with Time Bar
Dear experts, I am experiencing a very weird error, that seems unrelated to what Conn is actually doing. Strangely enough, there is nothing in the log console. Here is the message. I am currently...
View ArticleFischer transformed coefficients (RRC matrix) values >1
Hello, I was hoping to get some clarification on the outputs from CONN's first-level Seed based analysis (SBC). I exported the conditionxxx.mat files for each of my subjects/conditions and pulled the...
View ArticleRE: Average within / between network connectivity
Dear experts, I am facing a similar issue with version 20b (I have run the script without any problems in version 18b before). I get the following error when I try to run [u]conn_withinbetweenROItest...
View Articlepreprocessing questions
Hi Alfonso, I am doing resting-state analysis with CONN and have come up with some issues. In our dataset, there are some subjects with different image parameters compared with the rest of the group....
View ArticleError : Reference to non-existent field 'X1'.
Dear Conn experts, This time, the error has been reproduced multiple times and occurs both in batch and gui mode, when loading the "analysis" tab. Any idea what could cause it? Here is the error...
View Articleweighted glm script
Hello! I already preprocessed and denoised my data and now I'd like to run a weighted GLM. Is there a way to call a script directly without having to construct a conn*.mat project? I checked conn_glm.m...
View Articlepre/post connectivity
Hi, I have a pre/post study and I'm trying to calculate connectivity (pearson correlation) between pre and post phases in some pre-defined ROIs. However I don't know how to set up the batch. I think I...
View Articlepost-hoc analyses using additional software
Hi, Thanks for your work on the CONN toolbox! I recently successfully ran several subjects through the CONN gPPI pipeline. I want to know if I can use the files generated at the Second-Level Analysis...
View ArticleExport single subject ROI-to-ROI matrix
Sorry in advance for what I presume is a simple question! I am hoping to export a matrix (as a table or text file) that contains ROI-to-ROI connectivity between each pair of ROI's for each subject. In...
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