Re: [HCP-Users] hp2000 filter not applied to hp2000_clean.nii.gz volume data for some (one?) subjects?

Also ReApplyFixMultiRunPipeline.sh is not affected at all by this bug. Matt. From: mailto:hcp-users-boun...@humanconnectome.org>> on behalf of Matt Glasser mailto:glass...@wustl.edu>> Date: Tuesday, April 23, 2019 at 7:47 PM To: Timothy Coalson mailto:tsc...@mst.edu>>, "Harms, Michael" mailto:

Re: [HCP-Users] hp2000 filter not applied to hp2000_clean.nii.gz volume data for some (one?) subjects?

This is a bug affecting the use of ReApplyFix to re-clean data using a hand classification instead of the original FIX classification (and does not affect the use of ReApplyFix in MSMAll). It has been present since the release of ReApplyFix and will affect the volume data of all HCP-YA subjects

Re: [HCP-Users] hp2000 filter not applied to hp2000_clean.nii.gz volume data for some (one?) subjects?

Correction, the issue to follow is #107: https://github.com/Washington-University/HCPpipelines/issues/107 Tim On Tue, Apr 23, 2019 at 4:35 PM Harms, Michael wrote: > > > For users that want to follow this, please see: > > https://github.com/Washington-University/HCPpipelines/issues/108 > > >

Re: [HCP-Users] hp2000 filter not applied to hp2000_clean.nii.gz volume data for some (one?) subjects?

For users that want to follow this, please see: https://github.com/Washington-University/HCPpipelines/issues/108 It has something to do with the fact that we needed to apply manual reclassification of the FIX output in that particular subject/run. Cheers, -MH -- Michael Harms, Ph.D. --

Re: [HCP-Users] EXT MSG Re: Parcellation

Thanks for your very helpful advice Tim, I am going to use ciftify. Best, Frederic From: Timothy Coalson Sent: Tuesday, April 23, 2019 12:26:13 PM To: Briend, Frederic Cc: hcp-users@humanconnectome.org Subject: EXT MSG Re: [HCP-Users] Parcellation We recomme

Re: [HCP-Users] Parcellation

We recommend mapping the individual cortical data to surfaces before doing anything else with the data. If you have fieldmaps, and high-res T1w and T2w, you may be able to use the HCP pipelines to do this: https://github.com/Washington-University/HCPpipelines If you don't have these scans, anoth

[HCP-Users] Parcellation

Dear hcp-users members, I would like to use a parcellation (Glasser's atlas 360), to reduce the dimensionality from my image (resting-state images in .nii) from voxels to parcels (averaging my timeseries across each parcel). How is it possible to do that, as advice by Matthew here