RE: Combining several resting state scans into one session
[color=#000000]Hi Amy,[/color] [color=#000000]You could simply enter the list of those files as your functional data (for one subject and one run/session) and CONN will simply concatenate them (note:...
View ArticleRE: Connectivity predictor in multiple groups
[color=#000000]Dear Kristian,[/color] [color=#000000]Regarding (1), yes, your model does not include any treatment x fatigue interactions so the fatigue follow-up effect measured will be estimated...
View ArticleRE: loading preprocessed HCP data
Hi Alfonso! Thank you for the immediate and detailed reply! Everything worked! Best, Tatiana
View ArticleConn Function for second level analysis
Dear Conn Users, I am going to compare functional and structural connectivity for two different group. Does anyone know that which Conn function is for the second level analysis? I will be sure that...
View ArticleRE: Color Bar Limits - Connectivity RIng scaling;
Hi Alfonso, thank-you for the patch, it works for changing the number attached to the color bar. but it does not seem to alter the connection colors in the figure to correspond to the limits set in...
View ArticleRE: ROI-to-ROI analysis: set scaling for the colours
Hi Natalie, I believe this boils down to the same question I asked a couple of days ago. Alfonso prepared a patch to allow manual changes to be made to the colorscale (see his response to: Color...
View ArticleRE: Functional data with different TR values
Hi Alfonso, Thank you so much for your reply. I also have this issue in my dissertation dataset. If you have to time, could you potentially explain more how CONN handles the different sampling rates?...
View ArticleROI masks
Hi Alfonso, thank you again for all the help in the forum! I'm trying to run two types of analysis with CONN, seed-based functional connectivity and fALFF. For both, I'll use my own mask with my ROIs...
View Articleerror msg using CONN
Hello, I am trying to learn CONN toolbox for rfMRI analysis.. I see an error saying: ERROR DESCRIPTION: Error using conn_setup_preproc (line 3243) Multiple structural files found for Subject 1 Session...
View ArticleRE: Conn - how to run global correlation on parcellated data
Dear Alfonso, Thank you so much for your reply, this was exactly what I was looking for. I ran the code you suggested for (2) and it works perfectly! Thanks again for taking the time to respond, I...
View ArticleCONN: Normalization
Hello Everyone, Thank you for such a great toolbox... I'm using the CONN toolbox to analyse task-based fMRI data, I used Direct Segmentation and Normalization (default pre-processing) which uses...
View ArticleConnectivity values in slindig window analysis
Dear Alfonso, I'm trying to complete my ROI-to-ROI dynamic analysis (sliding window analysis) with descriptive statistics for window by window RSFC to examine the frequency of positive or negative...
View ArticleRE: Conn Function for second level analysis
[color=#000000]Dear Tuner,[/color] [color=#000000]You may run any second-level analysis using the function [/color][b]conn_module[/b]( 'glm', ...). For example, if you have 5 subjects data in two...
View ArticlePlot effect size from fisher transformed Z correlation
Hi This might be an easy one. Thought someone could give me the equation used to plot ROI-ROI effect size (plot effect button on 2nd level analysis). So I have the z scores of say source A and seed B....
View ArticleError bar and temporal denoising and ICA
Dear all, I have reviewer comments about the following: - The error bars what do they represent when plotting the effect sizes? I have three different group of subjects, I selected them all and...
View ArticleAdditional smoothing for the ROI
Hi all, I read in this article (Alakörkkö et al., 2017) that ROI to ROI analysis requires extra smoothing before even the spatial smoothing step. because of averging the signal for the ROI time...
View ArticleRE: Problem with ALFF and fALFF analysis
Hello Alfonso, Thank you for the response. I have attached the the conn_*.mat file. Thanks again, Mohammad
View ArticleRE: Pediatric Template
Hi Alfonso and Conn Experts, Concerning the command for the use of a pediatric template: [i]conn_setup_preproc({'functional_realign&unwarp', 'functional_slicetime', 'functional_coregister',...
View ArticleSkull extracted denoised output
Hi Alfonso, Hope all is well! I analyzed my resting state fMRI scans using the default pre-processing pipeline (output in MNI space) and, at the end, saved the denoised dswau* file. I noticed that...
View ArticleExtracting first level values
Hello CONN experts, I need to extract the first level connectivity values for all available ROIs in CONN within each participant. I've been able to get out the z tables and get those into Excel however...
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