Compare between group contrast error
Hi there, I need help =( I have defined the contrast at setup (sec-level) to compare control and patients. My study samples 8 vs 8. So for control i defined (1 1 1 1 1 1 1 1 0 0 0 0 0 0 0 0) and vice...
View ArticleAny effect F-test versus Any Difference F-test
Hi! I'm confused on the difference between the two F-tests (any effect and any difference). Can you explain what the "any effect" test is doing and the interpretation of the results of that test. I...
View ArticleRE: Dynamic connectivity analysis
[color=#000000]Hi All,[/color] I'm thinking of doing some dynamic analyses in CONN. Does the sliding window need to be specified in conditions in the set up in order to do DYN-ICA, or is DYN-ICA a...
View ArticleRE: Conn/Matlab keeps crashing
Thank you Alfonso! We installed the patch and were able to complete the rest of the CONN pipeline up to 2nd level with our full 1K sample. I really appreciate your help and your constant improvement of...
View ArticleAnalysis mask does not apply to ROI* rex extractions files?
Dear Alfonso, I want to confirm that when I change the analysis mask in options and re-run de-noising--the REX ROI files can contain data and 'names' of ROIs that did not have valid data. So in order...
View ArticleComparing multiple seeds to selected targets
Dear Alfonos and all This is a simple question probably but I hope someone helps with answering it. If I would like to perform ROI TO ROI analysis and My seeds are: A ; B; C ;D; F And then I...
View ArticleRE: Compare between group contrast error
Dear Alfonso, I have attached a picture with that matrix, I wanna compare HC>P and vice versa. However, the result came out weirdly as in the t-value and p-value generated were the same except the...
View ArticleVisualising in the new CONN
Hi all, The new CONN has great new visualisation ways - thanks for this great options. I have sets of 14 seeds. I also setup the 34 target regions. I would like to visualise all of these 14 seeds...
View ArticleRE: ROI to ROI connectivity
I am doing it for each subject group individually, i.e. control and patients. Thank you for clarifying why the p-value is so small, but where can I access/find the h values you speak of? Thank you
View Articledynamic functional connectivity: contrast specification
Dear Alfonso, First of all, thank you for the release of the new "Handbook of fcMRI methods in CONN". It´s great to have in-depth information about the preprocessing and analyses that can be run in the...
View ArticleRE: Analysis mask does not apply to ROI* rex extractions files?
Hi Alfonso, A quick follow-up, within CONN does REX apply any kind of scaling (global?) as it gives those options in the applet? What does it use by default within CONN? Best, Sarah
View ArticleAdding ROI files
Dear Experts, I completed second level analysis. I want to add 10 ROI mask created using CONN in MNI space. I have 2 questions here. 1. How to combine all the mask created in CONN? 2. After creating...
View ArticleScan Length for Resting State Functional Connectivity
Hi Alfonso and team, We are curious to know how many time points are required in resting state scans to complete functional connectivity analyses in CONN. For example, we work with children and...
View ArticleInconsistency between the linux and widows OS in covarites regression
Hi there, I did same analysis in different OS with same data from fmriprep (imported from fmriprep). The latest conn are used in the both OS. But I found after I abstracted the fisher-z FC in these two...
View ArticleParallel/HPC computing in CONN
Hi, I am using CONN on our University HPC environment and I had a few questions about how CONN handles preprocessing in batch HPC jobs. My question is regarding how CONN parallelizes the precprocessing...
View ArticleRE: Conn_batch_humanconnectomeproject
Thank you very much for your response! I'd like to submit the batch as a job to my HPC. Using the conn standlone how would I submit the conn_batch_humanconnectomeproject.m file? My current script is...
View ArticleGet voxel size of ROIs defined in networks.nii
Hi, Apologies if this has previously been asked, but I'd like to know the number of voxels in each of the anatomical ROIs defined in the conn/rois/networks.nii file (specifically the ROIs of the DMN,...
View ArticleMNI coordinates of predefined ROIs
Hi all, Does anyone know how to obtain the MNI coordinates of the predefined ROIs in the CONN toolbox? (i.e., precuneus, IFGr part triangularis etc). I know this question has already been asked but I...
View ArticleTwo sessions with overlapping conditions
Hi! I have a setup for my study with two sessions, each containing six conditions. Three of these conditions are called the same in both session 1 and 2, as they are basically the same task (i.e....
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