Re: [HCP-Users] signal to noise ratio

Hi Michael, for now preprocessing and SNR analysis are pretty basic, similar to what was done in Preibisch et al. 2015 (Evaluation of MB EPI Acquisitions for RS fMRI, PLOS ONE). Preprocessing only includes motion correction and SNR=mean of signal/SD of signal across the time course. We would

Re: [HCP-Users] signal to noise ratio

What kind of resolution are you looking to do and for what purpose? Peace, Matt. From: > on behalf of Sebastien Hetu > Date: Wednesday, July 19, 2017 at 3:28 PM

[HCP-Users] signal to noise ratio

Hi, We are trying to use the HCP lifespan rfMRI sequences on our PRISMA. Is there any data on the temporal SNR that can be expected (for single subject) using these rfMRI sequences that we could use to compare to our own acquisitions. Best regards Seb Sébastien Hétu Ph.D. Postdoctoral

Re: [HCP-Users] signal to noise ratio

Sure, we have data, but I'm not sure how useful it would be to you without getting into various details. e.g., What type of preprocessing are you intending? Does it include any denoising? How are you going to define your spatial mask? Etc... How exactly were you thinking of quantifying

[HCP-Users] hcp_fix.for_fix1.06a

Hi, I cannot find the modified version of melodic in http://www.fmrib.ox.ac.uk/~steve/ftp/fix.tar.gz. Where is the modified melodic? Thank you, Yeun ___ HCP-Users mailing list HCP-Users@humanconnectome.org

Re: [HCP-Users] hcp_fix.for_fix1.06a

What is this in reference to? Peace, Matt. From: > on behalf of Yeun Kim > Date: Wednesday, July 19, 2017 at 7:04 PM To:

Re: [HCP-Users] hcp_fix.for_fix1.06a

In the script ICAFIX/hcp_fix.for_fix1.06a, it uses the modified version of melodic: Debug "Modified version of melodic in use" Debug "melodic located at: ${HOME}/pipeline_tools/fix1.06a/melodic used" Debug "instead of melodic located at: ${FSLDIR}/bin/melodic" Debug "Beginning of melodic version

Re: [HCP-Users] hcp_fix.for_fix1.06a

I wouldn’t worry about that. Those modifications should be in the latest FSL release. Peace, Matt. From: Yeun Kim > Date: Wednesday, July 19, 2017 at 7:14 PM To: Matt Glasser > Cc:

Re: [HCP-Users] hcp_fix.for_fix1.06a

The latest of everything will work for most applications. Peace, Matt. From: Yeun Kim > Date: Wednesday, July 19, 2017 at 7:20 PM To: Matt Glasser > Cc:

Re: [HCP-Users] hcp_fix.for_fix1.06a

Latest release meaning 5.0.10? Or were the modifications implemented in previous releases/patches (in 5.0.9)? Is the hcp_fix script in http://www.fmrib.ox.ac.uk/~steve/ftp/fix.tar.gz (the latest release - version 1.065) the correct one to use, then? On Wed, Jul 19, 2017 at 5:15 PM, Glasser,

Re: [HCP-Users] diffusion data merge pipeline

Don't recommend the parallel processing or the eddy_cuda? On Tue, Jul 18, 2017 at 2:13 PM, Glasser, Matthew wrote: > We really don’t recommend you do that. I would ask about the eddy_cuda on > the FSL or neurodebian lists. > > Peace, > > Matt. > > From: Yeun Kim

Re: [HCP-Users] diffusion data merge pipeline

Don’t recommend splitting the diffusion preprocessing up. eddy_cuda is fine. Peace, Matt. From: Yeun Kim > Date: Wednesday, July 19, 2017 at 7:24 PM To: Matt Glasser > Cc: "Harms, Michael"