You can do it either way depending on the options you choose in probtrackx. We haven't decided what the official way will be for the HCP yet.
Peace, Matt. From: David Moreno <[email protected]<mailto:[email protected]>> Date: Monday, December 12, 2016 at 7:56 AM To: Matt Glasser <[email protected]<mailto:[email protected]>>, "[email protected]<mailto:[email protected]>" <[email protected]<mailto:[email protected]>> Subject: Re: [HCP-Users] About tractography code/software and seeding scheme Hi Matt, thanks for the reply. And could you tell me a bit more about the way the connectivity matrices are computed? As in: is seeding done from whole white matter with a total number of streamlines (and afterwards filtered by pairwise regions to calculate the matrix)? Or is seeding started from each different atlas-based region? and if so how many streamlines per region. Thanks in advance, On Mon, Dec 12, 2016 at 2:50 PM Glasser, Matthew <[email protected]<mailto:[email protected]>> wrote: I don't think we have officially released and scripts for this, but you can use FSL's probtrackx2 for this purpose. Peace, Matt. From: <[email protected]<mailto:[email protected]>> on behalf of David Moreno <[email protected]<mailto:[email protected]>> Date: Monday, December 12, 2016 at 6:42 AM To: "[email protected]<mailto:[email protected]>" <[email protected]<mailto:[email protected]>> Subject: [HCP-Users] About tractography code/software and seeding scheme Hello HCP users, I would like to find out more about the code/software HCP pipeline uses for probabilistic tracking, and especially about its scheme to compute a connectivity matrix ie: what is used as seeding mask (all wm or gm/wm interface ROIs). I am trying to find these bits in the code provided at https://github.com/Washington-University/Pipelines but I am having a hard time locating it. Could anybody give me some pointers? Regards, -- [Mint Labs]<http://t.sidekickopen54.com/e1t/c/5/f18dQhb0S7lC8dDMPbW2n0x6l2B9nMJW7t5XZs8qC6LHN3LyXBCdns9WVcVPpW56dTPhf3YpCFx02?t=https%3A%2F%2Fhtmlsig.com%2Ft%2F0000001BS30VN&si=5760864780288000&pi=e8e5ae17-0cc6-402c-dc68-80cfbe761fcd> David Moreno-Dominguez, PhD / Head of Neuroimaging +34 659 713 969<tel:%2B34%20659%20713%20969> Mint Labs +34 933 282 007<tel:%2B34%20933%20282%20007> http://www.mint-labs.com<http://www.mint-labs.com/> [Twitter] <https://twitter.com/dmordom> [LinkedIn] <https://www.linkedin.com/in/dmordom> _______________________________________________ HCP-Users mailing list [email protected]<mailto:[email protected]> http://lists.humanconnectome.org/mailman/listinfo/hcp-users ________________________________ The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail. -- [Mint Labs]<http://t.sidekickopen54.com/e1t/c/5/f18dQhb0S7lC8dDMPbW2n0x6l2B9nMJW7t5XZs8qC6LHN3LyXBCdns9WVcVPpW56dTPhf3YpCFx02?t=https%3A%2F%2Fhtmlsig.com%2Ft%2F0000001BS30VN&si=5760864780288000&pi=e8e5ae17-0cc6-402c-dc68-80cfbe761fcd> David Moreno-Dominguez, PhD / Head of Neuroimaging +34 659 713 969<tel:%2B34%20659%20713%20969> Mint Labs +34 933 282 007<tel:%2B34%20933%20282%20007> http://www.mint-labs.com<http://www.mint-labs.com/> [Twitter] <https://twitter.com/dmordom> [LinkedIn] <https://www.linkedin.com/in/dmordom> ________________________________ The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail. _______________________________________________ HCP-Users mailing list [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users
