We are trying to learn your programs to do functional connectivity in TBI (traumatic brain injury). We have a large group and have been using several MRI methods including DTI, SWI and MRS. I’ve wanted to use Fc for some time now and found your programs while searching on the SPM website. I was able to run an Fc analysis last night but without removing regressors of noninterest. I would like to use all features of both programs but have some questions. I did register but am in a time crunch so thought I might get faster answers to my questions. I must say, that I’ve looked pretty hard on the internet but don’t see anything as comprehensive as these programs for this purpose. Having said that, there are a few areas which are a bit unclear. I’ll pose my questions now:
1. I’m using matlab 7.1 and spm8. Any compatibility issues here with your programs?
2. Regarding DPARSF: is there an easy way to input the slice order, e.g., a text file, etc.? What is the reference slice referring to?
3. If you use DPARSF to do slice timing, realign, normalize, smoothing, does it call on SPM? If so, does it matter what version of SPM?
4. Halfway down in DPARSF, what does “Data with smooth” mean specifically?
5. If data is already preprocessed, e.g, realigned, normed, etc, is it necessary to name the folder appropriately, i.e, FunImgNormalizedSmoothedDetren
6. For nuisance covariates, do you enter them in using define ROI? Then input the masks? When you say 70% or 90% of an a priori image do you mean, e.g, 128 of 255 using MRIcro (50%) or 0.70 of 0.99 for scaled filter in MRIcro? Seems pretty restrictive for CSF at 90%.
7. Does DPARSF do functional connectivity as REST does? If so, where do you input the ROI, voxel or covariate to regress your data against?
8. How do I view the power spectrum in ALFF?
These are the key questions I need answered to move forward. I’d appreciate a quick response, if possible.
Thank you in advance,