Dear HCP community, I am using the HCP pipelines to process our data, which include a 1mm isotropic T1w, T2w and multiparametric, and a 2mm isotropic DWI sequences. I have modified the diffusion pipeline script so that the preprocessed DWI is upsampled to 1mm as it is registered to the native T1w (afterit’s been processed using the structural pipeline).
I am using the DWI to compute several parameters maps, from NODDI and DKI. What I want to do is map these parameters on the brain surfaces (pial, mid-thickness, inflated, ...), much like what is done with the myelin maps in the PostFreeSurfer pipeline. The goal is to compute individuals maps and also group average maps and compare between groups. I have no idea how to do that. I looked at the CreateMyelinMaps.sh script but it does not provides much comments/explanation, so I have no idea exactly what it is doing. I will have several maps to transfer on the brain sufaces like this, as we will also compute quantitative T1, T2* and susceptibility maps in addition to NODDI and DKI maps. What I want is build a script that takes as argument a subject name (assuming file names and directories conventions from the structural preprocessing pipeline) and a path to a parametric volume map, that will perform the surface mapping and add the results to a the subject’s spec file. Surely I am not the first one to do that and a script like that must exists somewhere. If anyone could provide me with an example script (with comments so I know what it is doing) that I could adapt, or direct me to a tutorial that explains how to do that, that would be of great help! Many thanks in advance, JF _______________________________________________ HCP-Users mailing list [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users
