RE: Centering option in MVPA analyses
Good afternoon Alfonso, I hope this message finds you well. I wanted to follow-up with updates regarding my queries from last week. 1) Centering: We have attempted to analyse our data (total n=87) with...
View ArticleError in conn_batch when trying to name Results contrast (i.e. Results.saveas)
Hello CONN community, I am testing out implementation of the conn_batch command, and am running into an error when trying to give a name to my user defined contrast (Note I receive this error on both...
View ArticleWeird Seed to Voxel Connectivity Results
Hi, I just ran a seed to voxel level functional connecitivity analysis copmprising of two groups and 3 covariates. The 10 ROIs of interest I'm looking at are four DMN seeds, hippocampus and PaHG...
View ArticleLinear vs. polynomial detrending
Dear Dr. Alfonso, Would you have any recommendations on which form of detrending should be preferred for resting state and task fMRI data? Additionally, for task fMRI data, is the detrending performed...
View ArticleThe download error in second level
Dear Dr. Alfonso, In the first level analyses, I set the "factor" of my data as 30 in dyn-ICA. I got all the results displayed in the second level results, but when I try to download the 3D...
View ArticleRE: Using CONN preprocessed and denoised data to do ICA in GIFT
Hello, did you find a solution for the below-mentioned problem? We've been trying to run spatial ICA in GIFT using denoised fMRI data (niftiDATA*_Condition000.nii) from CONN, but we keep receiving this...
View ArticleRE: Efficient way to add 2nd level covariates for large dataset?
[color=#000000]Hi Sarah,[/color] [color=#000000]In the [i]Setup.Covariates.2ndlevel [/i]tab, simply select the menu '[i]covariate tools. import new covariate(s) data from file[/i]'. CONN accepts a...
View ArticlefALFF: normalized vs. raw data differences
Dear Conn Experts, I have used Conn to calculate the fALFF differences between two groups. However, when I use the normalized (Z score transformed) fALFF values, the results are much more sparse than...
View ArticleError when creating VDM maps
Hello Everyone, I'm creating VDM maps for distortion correction in my preprocessing using two magnitude volumes and one phase volume. I get this error in one participant: ERROR DESCRIPTION: Error...
View ArticleError Outlier detection (ART-based identification)
Hello, During the preprocessing I get this error at the functional outlier detection : ERROR DESCRIPTION: Error using matlab.graphics.axis.Axes/set Value must be a 1x2 vector of numeric type in which...
View ArticleHow to change subject name?
Hello, This has to be the silliest question in the forum, and does CONN allow changing the subject name (e.g., instead of Subject 1, can I rename it to S101)? Thank you! Qiliang
View Articleresults filenames and meaning
Hi, I am new to CONN (conn18b_win64). I am using it for 1st level resting state analysis. Conn generates a lot of output files with prefix : c1art, c2art,centering_mean,iy_art,rp_,wc1art,wc2art etc. I...
View ArticleRE: fMRIPrep import
Hi Alfonso, I just wanted to provide an update. My wife recently purchased a new Mac (obviously has a new OS). As a result, I was able to download and use the newest version of MATLAB (2020b). I also...
View ArticleRE: additional regions significant with semi-partial correlation vs bivariate?
[color=#000000]Hi Sarah,[/color] [color=#000000]That's an interesting question, and yes, that is perfectly fine and there are really many different scenarios that can lead to that behavior (absence of...
View ArticleART-related error with Matlab when using GUI to run preprocessing step with...
Hello, I am running Conn using the GUI on my institute's HPC cluster (via the VNC) which uses SLURM. When I run preprocessing "locally" (using the default MNI pipeline minus slice timing), it finishes...
View Articleusing WM/CSF ROIs that were segmented by a different software for aCompCor
Hello, I would like to use CONN to get the WM and CSF Principal Components from aCompCor. As i am doing an analysis in subject space i do not want my images to be normalized. Is it possible to input...
View ArticleRE: error computing 1st-level covariate
Hi Alfonso, Thanks for your response. I now have a similar issue generating the "QC_timeseries" and "scrubbing" covariates. When I enter the "check errors" command, it says: ERROR: Subject 27 Session 3...
View Articlereference to non-existent field 'filename'
Dear Conn toolbox community, I have been trying to start an analysis of a batch of subjects. When I try to preprocess data I get the following error immediately: "ERROR DESCRIPTION: Reference to...
View ArticleRE: fMRIPrep surface analysis in CONN
[i]Originally posted by Julian Dronse:[/i][quote]Dear Alfonso, dear CONN community, I preprocessed a dataset with fMRIPrep including surface based data. However, I don't see a way to import the surface...
View Article