CONN Pipeline: ART Implicit Mask Error?
I was re-processing a dataset with the newest CONN version and ran across this systematic (potential?) error for all subjects:"Warning. Error encountered during ART implicit-mask file creation....
View ArticleWant to use my own ROIs for seed-based connectivity analysis
Dear Conn experts, Sorry for bothering you for such stupid questions. I did a VBM analysis on my two subject groups and found significant gray matter differences in a small region covering insula and...
View ArticleHow to erase sessions
Hello conn experts, My issue is that i want to erase sessions of every patient, though I do not want to erase some specific sessions. This is, I have plenty of session, as the experiment i was trying...
View ArticleRestrict between-group comparisons within ICA networks
Dear experts, I´m doing ICA analysis with Conn. My problem is that I would like to look at differences [u]within networks[/u]. I know how to create the network mask from the whole group analysis but I...
View ArticleRE: Error in conn preprocessing ROI
Hello! I've had the same problem as you Sarah. ERROR DESCRIPTION: Undefined function or method 'eq' for input arguments of type 'struct'. Error in ==> conn_menumanager>@(x)any(x==varargin{1}) at...
View ArticleQuestion permutation testing with repeated measures design
Dear Conn users, I am using conn 18a for resting-state fMRI analysis with following design: test group: 3 repeated measures (pre, post, follow-up) control group: 2 repeated measures (pre, post) I would...
View ArticleCSF signal contamination in seed timeseries
Hi Alfonso, We are performing a seed-to-voxel analysis using a seed that is adjacent to the third ventricle. I just wanted to verify whether we would need to be concerned about CSF signal...
View Articledifference between Effect of condition in confounds and first level covariate
Dear CONN experts, I'd like to know why one would want to copy task-related conditions to first level covariates. Aren't these regressed out during the temporal preprocessing (denoising) anyway? The...
View ArticleHow to analyze the data preprocessed from other software?
Hi, I would like to analyze the data preprocessed by Freesurfer and AFNI with CONN. However, we did not know how to insert each parameter in the item "Covariates 1st-level" and it could not be...
View ArticleFirst Level Not Displaying Data
Dear Conn Users, I am working in version 17f and have data that was fully processed in CONN for N=28 [2 sessions (pre- and post-intervention), two task conditions (2-Back and 0-Back) in each session]....
View ArticleCoding Main Effect/Interactions for Symptom Covariates of Multiple Groups
Hello CONN Experts, I've looked over the manual and past message board questions but still have some doubts on if I'm properly coding my 2nd level contrasts. I am looking at relationship of RS...
View ArticlePreprocessing
How does changing the parameters for preprocessing like motion outlier detection (95%percentile, 97%percentile) and structural and functional target resolution (1mm or 2 mm ) change the way the ROI...
View ArticleRE: Restrict between-group comparisons within ICA networks
In order to look at group differences within networks, would it be valid to: 1. Do ICA analysis 2. Do a mask of the group networks i m interested in ICA networks/Spatial properties/Results explorer...
View ArticleRealign and Unwarp Issue
Running 'Realign & Unwarp' SPM12: spm_realign (v6070) 17:09:55 - 09/01/2019 ======================================================================== Failed 'Realign & Unwarp' Error using save...
View ArticlegPPI after denoising the Effect of the conditions
Hi CONN experts, Suppose I have a set of conditions, say rest, stim1 and stim2 I've been wondering if it is correct to do gPPI using the task conditions after having used the Effect of stim1 and Effect...
View Articlesecond level cov not used until second level analysis stage, correct?
Hi Experts, I ran through setup, denoising, and first level analysis in a large dataset and just realized I made a mistake when specifying one of my second level covariates (questionnaire score). If I...
View ArticleRE: Denoising Error, Updating Analysis variables
Hello, I am suffering from the same problem here. I am getting the same error as William mentioned and have tried running through older versions of CONN to no avail. Strangely, I can run the denoising...
View ArticleRE: dmn seed definition rationale?
Hi Alfonso, I was wondering if there is an update on this, does Conn still use the coordinates from the Fox et al. PNAS 2005 paper? Thank you for all your hard work putting this toolbox together. Best...
View ArticleRE: How to make it faster?
[color=#000000]Dear Alfonso, [/color] thank you for keeping the CONN toolbox updated and helping the CONN community everyday! I'm using a windows PC for our CONN analyses. Would option C (from your...
View ArticleHow to get the sharp output time series after Preprocessing step
Dear CONN experts, I'm a new user of CONN toolbox. I would like to remove noises from the EPI images (denoise) and then use them as input files to SPM for the analysis. So, I selected 'create...
View Article