RE: c0c0c0c0 prefix to the structural when re run?
[color=#000000]Hi Sarah,[/color] [color=#000000]I see what you mean now and that is a very good point, thanks for all the additional information. I believe simply deleting the .dmat file associated...
View ArticleUse whole brain perfusion as within-subject covariate
Hello, I am using[i] conn[/i] (v19.c) to analyze functional connectivity during n-back tasks in caffeine and caffeine withdrawal conditions compared to placebo. Since our resting ASL data have...
View ArticleRE: Calculating DVARS
[color=#000000]Dear Zahra,[/color] [color=#000000]The first-level covariate named 'QC_timeseries' (this is typically created during ART preprocessing step) contains two timeseries, the first is the...
View ArticleRE: Paired ttest a posteriori
[i]Originally posted by Alfonso Nieto-Castanon:[/i][quote][color=#000000]Dear Fred,[/color] [color=#000000]Typically you would/should have entered 2 as the number of sessions per subject (and 16 as the...
View ArticleRE: conn gui error in 2nd level results display
Hi, I encountered the same problem when I run GICA with distributed processing. However, when I transferred to run with local computing. It works. Hope it helps. I'm using CONN 19.c.
View ArticleError on pressing “Done” at Setup (CONN version 19.c)
I am analysis on data obtained during a motor task from 9 participants. The data had been analysed before (not with CONN) so I already have SPM.mat files for each participant and I just imported them...
View ArticleError Set up functional data
Dear Alfonso, There is an error in the setup pipeline after preprocessing. I used CONN's default preprocessing pipeline. All subjects are supposed to have 500 scans for sessions 2 and 5. As you can...
View ArticleRE: fMRIPrep import
Hi Alfonso, No need to apologize. Issues are to be expected with updates/changes. I am working with a senior colleague on this, and we attempted the following: 1) As per your suggestion, we used the...
View ArticleHow to extract Beta or correlation values for ROI-to-ROI analysis?
Dear Alfonso, I am looking at five ROIs and the connectivity between them. When I use the resluts explorer I can only export a table as .txt WITHOUT beta values. Only T values. Is it somehow possible...
View ArticleRE: error while denoising using CONN's modular function
[color=#000000]Dear Michael,[/color] [color=#000000]Sorry those instructions are using functionality that is currently still only available in the development version. It will soon be available in the...
View ArticleRE: CONN Preprocessing error
[color=#000000]Hi Fred,[/color] [color=#000000]That error indicates an unexpected dimensionality of your functional data (e.g. data may be a 2d image instead of a 3d volume, or its voxel-to-world...
View ArticleRE: Concatenated files set up error mismatch between first level covariate...
Dear Alfonso, There seems to be a problem with this patch. I applied it and preprocessed my data again and received the error message that I wrote to you in my recent post:...
View ArticleHow to custom ROI
Hello, First, sorry for my bad English. I once got an analyses through CONN, but I couldn't divide seeds in more detail. For example, I wanted to divide hippocampus to anterior hippocampus/posterior...
View Articleconnectivity at each TR?
I'm conducting resting state analyses and we have several other metrics that we collect continuously during the scan. I am wondering if there is a way to index connectivity between two brain regions at...
View ArticleExtracting the amount of outliers for the decision which subjects should be...
Hey Alfonso, simple question I guess. So far I used the "art_regression_timeseries_auCODE.mat" file to check for the amount of outliers. In this matrix - I THINK - I can find movement and global signal...
View ArticleError while merging jobs with project?
Good evening, I used this wonderful Toolbox to preprocess and analyze my resting state data. I chose the option "distributed processing - run on Slurm computer cluster", which is why I had to merge the...
View ArticleRE: Global Signal regression (GSR) possible?
Hello Scott and everyone, Apologies since this is an old thread. And, thank you Scott for sharing the script. I used the batch script in CONN, but I think the denoising step doesn't consider the...
View ArticleRE: Field mapping correction
Dear Alfonso, I'm using conn19c in windows 10 and trying to use field mapping during preprocessing. (The data were acquired by philips.) I got a message like below. The field map file I used are...
View ArticlePrimary vs secondary dataset when re-importing data from another toolbox
Hello, I applied wavelet de-spiking to my swau* volumes in another toolbox and re-entered those volumes ('wds_swau*') into CONN in Setup.Functionals primary dataset but did not change the other...
View ArticleRE: Correction for global signal
[i] [/i][quote][i]Originally posted by Alfonso Nieto-Castanon:[/i][quote][color=#000000]Dear Natalia,[/color] [color=#000000]By default the conn toolbox uses CompCor, instead of global signal...
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