[HCP-Users] some scans have _MSMAll_hp2000_clean.dtseries.nii but not MSMSulc cifti or _hp2000_clean.nii.gz ?

2018-10-23 Thread Keith Jamison
We recently noticed a couple of scans on s3://hcp-openaccess that are missing the cleaned MNI volumetric nifti and clean MSMSulc cifti, even though they have the uncleaned MNI nifti AND the cleaned MSMAll cifti. Two examples:

[HCP-Users] dlabel file with FSL HistThal Atlas

2018-10-23 Thread Timothy Hendrickson
Hello, I am attempting to use the HistThal Atlas: https://github.com/CobraLab/atlases/tree/master/colin27-subcortical as the subcortical portion of a cifti file with the intention of creating a way to incorporate it into a dlabel file. Is there some sort of how-to that you can point me to as to

Re: [HCP-Users] dlabel file with FSL HistThal Atlas

2018-10-23 Thread Glasser, Matthew
It would need to be via wb_command -cifti-label-import and following the instructions in the usage there. Matt. From: mailto:hcp-users-boun...@humanconnectome.org>> on behalf of Timothy Hendrickson mailto:hendr...@umn.edu>> Date: Tuesday, October 23, 2018 at 5:43 PM To:

Re: [HCP-Users] dlabel file with FSL HistThal Atlas

2018-10-23 Thread Timothy Coalson
There are two steps you need to do, and you can do them in either order: put the label names into the data file in the way workbench expects, and go from volume to cifti format. I would probably do it as making a workbench-style label volume file first: 1) wb_command -volume-label-import 2)

Re: [HCP-Users] Fiber tracking starting from PTM volumetric labels

2018-10-23 Thread Glasser, Matthew
I would do something like that with the MSMAll CIFTI data. Matt. On 10/23/18, 6:49 PM, "hcp-users-boun...@humanconnectome.org on behalf of Nicola Toschi" wrote: >Hello List, > >I would like to ask the experts an opinion about an analysis we are >thinking of running. > >Would there be any