RE: How to use mask on CONN
Hi all, Any luck on using masks in CONN? I've found one post on the forum which mentioned editing the TPM.nii file, but I am unsure how to do so: https://www.nitrc.org/forum/message.php?msg_id=26112...
View ArticleRE: first level threshold
Hi all, Alfonso, you mentioned needing to do something more complex in order to compare results from a single subject across multiple conditions or sessions. Unfortunately this is exactly what I would...
View ArticleRE: ICC and Global Correlation Differences
Hi Folks, I'm bumping this year-old message from Maria to the top to see if anyone has any thoughts. I have the same issue and wondering if anyone who understands the math better can help illuminate...
View ArticleRE: Preprocessing failure, problem writing header
I revive this thread because I meet the same error. I'm working on a SLURM HPC. Up to now I had no issue at all. The msg I get is:[quote]Done functional Direct Segmentation & Normalization...
View ArticleDenoising "Setup Error"
Hi, I keep running into an error at the Denoising step. After I preprocess the data, make sure all the ROIs, covariates, and conditions are set up and hit done, it finishes importing all of that data,...
View ArticleHow to use 'age' as a covariate
Hi Alfonso, I am a little confused about setting up age as a covariate in analyses. For example, if I have a 2 group comparison (treatment, control) on some outcome and I want to control for age, I...
View ArticleHow to obtain voxel to voxel matrix and graph for each subject ?
Dear experts, I'm doing both ROI analysis and voxel to voxel analysis for two groups of subjects (patients vs. control). When I ran local correlation, I obtained activation map per group. Is there a...
View ArticleRE: Coding Main Effect/Interactions for Symptom Covariates of Multiple Groups
Thank you so much once again for your detailed feedback Alfonso. It is really appreciated!!
View ArticleUsing Conn for ASL preprocessing and MVPA
Dear Conn Experts: I have resting-state ASL data and would like to perform MVPA on them using CONN. I read a couple of recent papers that used CONN to run MVPA on ASL data. However they first...
View ArticleQuestion on order of subjects/conditions in network measures output
Dear experts, I have run an analysis with 39 subjects and 4 conditions. In the output files of the graph measures (global efficiency, etc.), I obtain 156 rows, which correspond to the 39*4 subjects....
View ArticleRE: Bugfix: dynamic connectivity with custom rois
Hi, My query is not related to your bugfix, but to your custom ROIs and how they were defined? I am starting a project looking a functional connectivity between certain broadmann areas and prefer to...
View ArticleAtlas with Broadmann's Areas
Hi All, I'm starting a new study looking at functional connectivity between certain broadmann areas, however, these areas aren't well defined in the standard atlas provided with conn. I am wondering if...
View ArticleRE: Multi-session pre-post design QC_ValidScans for each separate session
Sorry for the slow followup. Worked out great, thank you!
View ArticleREX gui problem - manually selecting BETA images
Dear Conn users, I am using the conn18b standalone version. When I use the REX gui, I am sometimes asked to select the BETA images for all subjects/conditions as Sources manually, as the program cannot...
View ArticleOne patient vs Group Seed-based analyses, accounting for the patient's lesion
Hi all, I am going to perform a whole brain FC seed-based analysis comparing one patient vs a group of twenty-three controls. Patient presents a huge lesion and I wanted to account for it in the...
View ArticleDynamic Connectivity Interpretation
Hi there, I was wondering if you could explain the Dyn ICA output for spatial and temporal properties. I assume the spatial properties are a representation of spatially connected regions throughout the...
View ArticlePreprocessing and co-registering ROI to subject space
Hi Alfonso, I want to do an analysis with various ROIs in CONN. I picked the ROIs using WFU picks atlas. I am in the first preprocessing steps and I have an anatomical and functional for a single...
View ArticleRealign and Unwarp Flipping part of the bold files?
Hi All, I'm running into a strange error. I recently decided to reprocess some of the data (180 volume bold files). I used orientLAS and 3dretroicor and then loaded the files into CONN where I ran...
View ArticleInteraction between continuous variables
Hi Conn experts, thank you for this amazing software and for listening to the growing community needs and questions. I have a beginner's doubt regarding interactions effects between two continuous...
View ArticleError while doing seed-to-voxel analysis
Hello, I am doing a seed-to-voxel analysis for 2 seeds and I am getting the following error message at the 2nd level analysis. Can someone let me know what I need to do to correct this error? Thank you...
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