Applying correction for multiple seeds
Dear CONN experts, I´m doing a Seed to voxel analysis with CONN. I have 12 Seeds, and I´d like to correct for multiple Seeds in addition to the whole brain FDR correction. Could you please confirm if...
View ArticleMultivariate regression beta maps z-transformation?
Hi there, I have used Conn to run a multivariate seed based analysis to look at the unique correlation of 1 seed, while correcting for two other seeds. As output in the first level analysis I get the...
View ArticleCohen's d in comparison of 2 independent samples
Dear Alfonso, Could you please clarify for a non-specialist in statistics, As far as I have understood, you are writing about Cohen's d in comparison of 2 independent samples (patients vs. controls)....
View ArticleExtract data / import values from ICA results
Dear CONN users I have problems figuring out which values are automatically extracted from ICA results. After loading the spm.mat file (second level results) in REX the software seems to extract data...
View ArticleOne group - 3 sessions
Hi all, I have got 30 healthy participants (no patient group). I am testing the test-retest reliability of a new MRI protocol. Each participant was scanned 3 times, a few weeks apart, which, I guess,...
View ArticleROI masks - odd display
Some of the ROIs in my atlases are bilateral, such as MTG. I use fslmaths to threshold, and fslroi to extract the left and right areas to separate files. When I display them in fsleyes, they look find....
View ArticleRE: Save 2nd-level ROI-to-ROI connectivity matrix
Hi Alfonso, I have a follow-up on this question regarding test statistics in ROI-ROI analysis. I'm currently testing differences in ROI-ROI connectivity (among 12 ROIs) between three groups,...
View ArticleContrast definition
Hi, apologies if this has been asked before however I need some clarification on my resting-state contrasts. I have two groups [autism spectrum disorder (ASD) vs. typical development (TD)]. I am...
View ArticleRE: first level threshold
Hello! Just wanted to follow up from my last post about whether anybody has had any luck with finding a way to produce multiple-corrected maps at the first-level? Thanks! Kaitlin
View ArticleCentrality measuring methods comparision
Hi there, I want to know can I compare centrality measuring methods in this toolbox and/or what are the other research topics that I can explore in functional connectivity using this toolbox. Thank...
View ArticleVisualizing results from a pre-generated thresholded T-map
I have a thresholded t-map generated from an SPM run, and I'd like to use CONN toolbox to generate figures; is there any way to do this without working through the setup and pipeline? I am wondering if...
View ArticlePreprocessing HCP data in native space
Hi, I would like to use the unprocessed data of the rsMRI from the HCP. I also want to see the result overlayed over the native structural T1 images. Can somebody help me with the choices in the...
View ArticleNon-rigid reflection along x-axis for custom ROIs
Dear Alfonso & community, I am running analyses in CONN where I perform a flipping of the hemispheres for a subset of participants (non-rigid reflection along x-axis (x/y/z to -x/y/z)) for the...
View ArticleCombining Brodmanns areas for ROI - Measure1 and measure2 output
Hello! I am performing a seed-to-voxel analyses with one seed (dorsolateral prefrontal cortex) combining Brodmann's areas 9 and 46. I have defined the between-sources contrast as [1 0:0 1]. I have 3...
View ArticleSecond-level analyses – controlling for age and sex between-subjects contrast
Hello, I am trying to figure out how to define the between-subjects contrast in order to control for age and sex in my analyses. I have three groups of interest: affected patients, unaffected patients...
View ArticleObtaining correlation coefficients from a ROI-to-ROI analysis
Dear CONN experts, we analyzed a resting-state data set on a healthy control sample, and we defined 12 ROIs. We would like to obtain correlation coefficients for each individual ROI with all the...
View ArticleRE: CONN 18a. Error in importing SPM.mat
Hi all, I also get the same error using conn 17.c after importing my data preprocessed in SPM: ERROR: Subject 1 Session 1 condition 1 contains onset times beyond the end of the scanning session ERROR:...
View ArticleROI-to-ROI matrix
Dear conn experts, I'm having some trouble interpreting the effect sizes in the ROI-to-ROI results. To get an overview, I've been extracting the ROI-to-ROI matrix in terms of two-tailed T-values or as...
View ArticleDenoising destroys preprocessed nifti output
Dear forum, I am working with the conn_batch system in order to preprocess and denoise my fmri data for further analysis steps. My preprocessing steps inherit: - structural_segment - functional_segment...
View ArticleRE: Seed Based Analysis - Conceptual Question
Hi paul, I am struggling with the same issue, has it been resolved ?
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