For MNI space ROIs you use the
--xfm=${StudyFolder}/${Subject}/MNINonLinear/xfms/standard2acpc_dc.nii.gz and
--invxfm=${StudyFolder}/${Subject}/MNINonLinear/xfms/acpc_dc2standard.nii.gz
flags in probtrackx.
Peace,
Matt.
From: hercp <he...@uw.edu<mailto:he...@uw.edu>>
Date: Friday, August 25, 2017 at 4:46 PM
To: Matt Glasser <glass...@wustl.edu<mailto:glass...@wustl.edu>>
Subject: Re: [HCP-Users] Tractography
I have another question along this line. I want to define a ROI on the
BestpostX files I downloaded using an existing atlas. Do I have to convert all
.nii files in that directory to MNI space using FSL-FLIRT one by one, or is
there a more parsimonious method?
Thanks again for all your help.
HP
From: Glasser, Matthew
Sent: Thursday, August 24, 2017 11:30 AM
To: hercp
Cc: HUMAN CONNECTOME
Subject: Re: [HCP-Users] Tractography
You need to switch from preprocessed to analysis in the package selector on
ConnectomeDB to see it.
Peace,
Matt.
From: hercp <he...@uw.edu>
Date: Thursday, August 24, 2017 at 11:40 AM
To: Matt Glasser <glass...@wustl.edu>
Subject: Re: [HCP-Users] Tractography
Thanks, Matt. Which files are the output of the Bedpostx process? I am
currently looking at subject 116524. These are files I was able to download.
[2017-08-24_9-36-36]
Once again, thank you for your help.
Heracles Panagiotides, PhD
From: Glasser, Matthew
Sent: Thursday, August 24, 2017 6:50 AM
To: hercp ; HUMAN CONNECTOME
Subject: Re: [HCP-Users] Tractography
Also as Steve has reminded me, you can download the Bedpostx outputs
pre-computed.
Peace,
Matt.
From: <hcp-users-boun...@humanconnectome.org> on behalf of Matt Glasser
<glass...@wustl.edu>
Date: Thursday, August 24, 2017 at 6:53 AM
To: hercp <he...@uw.edu>, HUMAN CONNECTOME <hcp-users@humanconnectome.org>
Subject: Re: [HCP-Users] Tractography
That is the price one pays for really high spatial and angular resolution
diffusion data. You can accelerate things quite a bit on CUDA capable GPUs.
Peace,
Matt.
From: <hcp-users-boun...@humanconnectome.org> on behalf of hercp <he...@uw.edu>
Date: Thursday, August 24, 2017 at 6:31 AM
To: HUMAN CONNECTOME <hcp-users@humanconnectome.org>
Subject: [HCP-Users] Tractography
Hello Everyone,
I am running BEDTPOSTX Estimation on FSL using DTI data that I downloaded from
the HCP site. The process is taking a very long time (days) to process. Is
there a faster way to do tractography?
Thanks,
Heracles
_______________________________________________
HCP-Users mailing list
HCP-Users@humanconnectome.org
http://lists.humanconnectome.org/mailman/listinfo/hcp-users
_______________________________________________
HCP-Users mailing list
HCP-Users@humanconnectome.org
http://lists.humanconnectome.org/mailman/listinfo/hcp-users
_______________________________________________
HCP-Users mailing list
HCP-Users@humanconnectome.org
http://lists.humanconnectome.org/mailman/listinfo/hcp-users
