Re: [HCP-Users] Cluster Thresholding

You might also consider a parcellated analysis if you are interested in affects at the areal level. Peace, Matt. From: > on behalf of "Harms, Michael" > Date: Monday,

Re: [HCP-Users] Cluster Thresholding

Yes, we recommend using PALM for statistical inference. --  Michael Harms, Ph.D. --- Conte Center for the Neuroscience of Mental Disorders Washington University School of Medicine Department of Psychiatry, Box 8134

[HCP-Users] Cluster Thresholding

Hi, What is the most up-to-date method for thresholding clusters of adjacent grayordinates using workbench, or which fsl tools are best to use with cifti data. I saw that PALM by FSL was recommended in a previous thread. Is that still recommended? Is that to be used in place of film or FEAT or

Re: [HCP-Users] Mapping volumetric maps on brain surfaces

You can make T1w/164K_fs_LR versions of the surfaces by resampling the native mesh surfaces in T1w space to the 164k mesh: wb_command -surface-resample ${StudyFolder}/${Subject}/T1w/Native/${Subject}.${Hemisphere}.${Surface}.native.surf.gii

Re: [HCP-Users] Mapping volumetric maps on brain surfaces

Dear Matt, Thank you for your answer. I read the paper, and things are much clearer now. I have another question though. In addition to the parametric maps derived from DWI, we also have quantitative parametric maps (T1, T2*, PD and susceptibility) computed from a multi-parametric mapping

Re: [HCP-Users] SNR regarding resting state fcMRI in the HCP database

You need to correct such maps for the increased number of degrees of freedom in HCP data if you want to get a sense of sensitivity. For grayordiante-wise correlation analysis, you can increase SNR using a Wishart Rolloff as described in the supplementary methods of our recent publication:

Re: [HCP-Users] Scan order variable

Hi Janine, As you point out this info is available in ConnectomeDB and there are csv's generated in our unprocessed packages that give this scan information per subject. We are working on the issue of making this info more conveniently available as a single zip of all these csv's for the S900.

Re: [HCP-Users] Projecting AAL atlas from volume onto 32k average surface

As has been discussed on the list before, group average surfaces do not have the geometric definition that volume spaces expect: https://www.mail-archive.com/hcp-users%40humanconnectome.org/msg02669.html The AAL atlas appears to have been defined from a single individual - if this is correct,

[HCP-Users] SNR regarding resting state fcMRI in the HCP database

Dear group, I analysed the SNR of a HCP subject (100206, rfMRI_REST2_LR) and was wondering that the SNR is quite low. Attached you can find the results for the threshold of 30. Using a threshold of 50 all signal disappeared! I am aware that the use of higher spatial resolution results in a