correction across seeds in seed to voxel connectivity
Hi all, How can I select several seeds for a seed to voxel connectivity and correct the results for multiple comparisons across seeds? Does this make sense? Is it possible?
View ArticleRE: Using Freesurfer ROIs in Surface-based analysis
Hi Alfonso, Thanks for your reply - this worked perfectly! For the first level analysis, I noticed that the Freesurfer ROIs (i.e., aparc+aseg.mgz) for each subject did NOT include a brain region name...
View ArticleConfusion about +ve / -ve group-level connectivity differences
[color=#888888]Hello again,[/color] [color=#888888]I am a bit confused about interpreting my resting-state ROI-to-ROI connectivity results hence here I'm posting in hope of getting valuable response...
View Articlereference or general info on the functional atlas in conn
Hello! I couldn't find more comprehensive info on functional atlas in conn. It's build on results from 500 subjects from HCP and there are several "traidtional" networks identified. However, I'm...
View Articlepreprocessing error
ERROR DESCRIPTION: Error using cellstr (line 49) Conversion to cellstr from double is not possible. Error in conn_datasetcopy (line 44) existf=conn_existfile(cellstr(f1)); Error in conn_setup_preproc...
View ArticleLoad Error in CONN
Hi all, After rerunning my preprocessing steps to add another ROI into my dataset, I have been unable to load the .mat file in CONN. It gives me the following erorr: Error using conn (line 740) Failed...
View ArticleRE: Lesion Masks
Hi all, I'm also running into this problem. Did anyone find a solution to this question yet? Best regards, Wouter [i]Originally posted by Matthew Heard:[/i][quote]Hi Giuliana, Any luck solving this...
View ArticleDiffusion steps for smoothing
Hi, I'm trying to run a surface-based functional connectivity analysis through a conn_batch script, and I received a prompt for entering the "number of diffusion steps for smoothing". The number is set...
View ArticleRE: Compcor threshold
Hi, Alfonso, I am curious about how many components should be set for CSF and WM with aCompCor in Denoising step? Though, the default is 5 both for CSF and WM, but is there a quantifed critiera? Thanks!
View ArticleData quality tools
Dear experts, I need to know if, after applying the ArtRepair toolbox, it is appropriate to correct the physiological and movement artefacts (for example, with movement, cardiac and respiratory...
View Articleloading in previously denoised data
Hello, I am working on a pipeline to go from fmriprep to CONN. Currently I want to set it up to do all the preprocessing and denoising outside of conn using afni's 3dTproject. We want to be able to...
View ArticleRE: second level ROI-to-ROI "import values"
Hi - I have a related question. I submitted an article where we examined changes in 14 network correlations before and after an intervention. The reviewer now asks for the values of the pairwise...
View ArticleRE: Freesurfer's Brainmask preprocessing
[color=#000000]Hi Oliver,[/color] [color=#000000]Those are interesting questions. Briefly:[/color] [color=#000000](1) that should be fine (but see (3) below)[/color] (2) yes (and it will switch the...
View ArticleWeighted GLM functional connectivity or gPPI
Greetings, I am currently assessing whether a cue reactivity task modulates functional connectivity. I ran weighted GLM functional connectivity analyses at the first-level, and at the second-level, I...
View ArticleConditions for groups with different number of scans
Hello all, I have a question regarding conditions setup for a project with patient and control groups. The patient group has 2 resting state scans (pre and post) while the control group only has one...
View ArticleRE: HCP data and conn
I have the same question. Has someone encountered this and knows how to properly concatenate AP PA rest nii files before CONN processing ?
View ArticleCONN v.18a Abd File Failed to Load
We have an issue that arises from time to time with CONN v.18a. When it's trying to load a file we get a failed to load file message. There's a patch for this we have tried. But, this did not fix the...
View ArticleRE: CONN TROUBLESHOOTING
I had the same problem. I analyzed 15 subjects 2 sessions each and 4 subjects had problem. If anyone knows something about it, please leave a comment!
View ArticleUsing the BETA_denoising_Subject*.nii for activity differences in another tool
Hi Alfonso, I would like to examine the activity differences between two conditions using GLM Flex (http://mrtools.mgh.harvard.edu/index.php?title=GLM_Flex_Fast2). For that I would need the...
View ArticleBaseline required for task-based functional connectivity analysis?
Hello, I have performed a task-based functional connectivity. For this purpose, I largely followed the manual and the forum. In retrospect, I noticed that I have specified epochs for conditions that I...
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