RE: Accidentally overwrote 2nd level QC covariates!
[color=#000000]Thank you very much Alfonso![/color] [color=#000000]Everything worked except for denoising again did not populate the other field (QC_BOLDstd) and i don't have GC-GCOR in the list at...
View ArticleChanging ROI color in 3d display
Hi, I am trying to create a ROI-to-ROI connectivity visualisation using the 3d display tool. The problem is that one of the ROIs appears as a black sphere while the other appears red (see attached...
View ArticleNo significant activation in the seed, task-based functional connectivity
Hello CONN users! I am new to CONN and functional connectivity analysis and so I would like to ask whether my analyses make sense. I am conducting task-related seed-to-voxel analysis. I have two groups...
View ArticleAlternative ROI parcellation for connectivity matrices
Hi, I am trying to generate a connectivity matrix for resting-state data which I have already preprocessed and denoised. I am trying to use the Shen atlas (268 ROIs:...
View Articlep-values matrix
Dear experts, I have performed a ROI-to-ROI analysis, and I have extracted the r values from the correlation matrix: conn_*/results/firstlevel/ANALYSIS_01/resultsROI_Condition###.mat Where could I find...
View ArticleIs it a problem in original distribution of conn values is not skewed?
Hi Alfonso and forum, I have attached an image from the de-noising window--most of my subjects have r value plots that look like this: The Original and Denoised distributions do not look...
View ArticlePre-processing montage
Hi all, I have 61 subjects with T1 (and BOLD) images and I am running pre-processing as I normally do and have done in other projects. When I go to the set-up tab after pre-processing, I can see each...
View ArticleQuestions about MVPA in Conn
Dear Alfonso and Conn users, First of all, I just want to say thank you so much for making the forum such a helpful community, and I learned a lot from communications on here. I'm trying to do some...
View ArticleRE: Seed-to-voxel within ROI analysis
[color=#000000]That look great[/color] Thank you Alfonso [i]Originally posted by Alfonso Nieto-Castanon:[/i][quote]Hi Pedro, [color=#000000]Right, the '[i]analysis mask[/i]' field is really applied...
View ArticleRE: denoising: which files to use in SPM 1st lev?
[color=#000000]Thx for the information. I'm interested by using this way to compute Dynamic Causal Modeling in SPM.[/color]
View ArticleRE: ICA variability calculation method
I was also not able to find the answer to this. I am going to assume it's the SD of the BOLD signal? Alfonso please confirm.
View ArticleGenerate Scrubbing Covariate w/ Alternative FD metrics?
Hi Alfonso, I'm stumped trying to create a new scrubbing covariate using the FD power metric (instead of ARTs default). I use the conn_convertl12l1covariate command (or the GUI) to create my...
View ArticleOutliers: removed or statistical covariates?
Hi, I am curious what the default CONN preprocessing and denoising pipelines do with the detected outliers? Do they remove them from the data entirely or are they made into statistical covariates?...
View ArticleHow does conn handle semipartial correlation (when TS is shorter than number...
Dear Dr. Alfonso, Hope you are doing well. I have a naive question: consider the case of task-based fMRI where we have multiple conditions. After denoising and concatenating condition specific TS, it...
View ArticleROI-ROI Extract Correlation Coefficient Inconsistency
Thank you in advance for your support! I originally selected 6 ROIs (BL OFC, BL AMY, BL IC) in my CONN analysis though later decided to exclude the BL Insular Cortices. I did not go back and rerun with...
View ArticleError in first level analysis
Dear Experts, My first level analysis was stopped because of an error. I have pasted the error description below. Please provide a solution. Thanks in advance, Ramesh [color=#0000ff]ERROR...
View ArticleRE: Exporting timecourse after computing ICA Networks
[i]Originally posted by who93:[/i][quote]Dear CONN experts, I have completed my CONN analysis, but I am wondering if there is any way to export the timecourse for each subject for each ICA network....
View ArticleBetween-subject contrast 'Any effect'
Hi Alfonso, I have been using Conn for a few months, it is an amazing tool, thank you! I have 2 questions regarding the "Between-subject contrast" in the Seed-to-Voxel analysis. I have noticed that for...
View ArticleRE: Overwriting second-level covariates
I am still currently unable to find out where these second level covariates are saved. Any help would be appreciated
View ArticleAbout using weighted GLM in the 1st-level analysis
Dear experts, I recently started to use CONN and got a few questions about the analysis in this toolbox. In particular, I am not sure about how the weighted GLM works in functional connectivity...
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