Hi Ho,
Mike is correct. Here is the information we provide in the HCP Data Reference Manual: “The gradient unwarping code is available at https://github.com/ksubramz/gradunwarp/blob/master/Readme.md (Jovicich <http://www.sciencedirect.com/science/article/pii/S1053811905007299> et al., 2006). The gradient field nonlinearity coefficients for the Connectome Skyra are considered by Siemens to be proprietary information. To request access to these coefficients, please contact your Siemens collaboration manager or email Dingxin Wang at [email protected].” Others have successfully obtained the coefficients by writing Dr. Wang, so I would do that. As Mike says, it would be nice if you reported back your experience to the list after you do this. Best, Jenn Jennifer Elam, Ph.D. Outreach Coordinator, Human Connectome Project Washington University School of Medicine Department of Anatomy and Neurobiology, Box 8108 660 South Euclid Avenue St. Louis, MO 63110 314-362-9387 [email protected] www.humanconnectome.org From: [email protected] [mailto:hcp-users- [email protected]] On Behalf Of Harms, Michael Sent: Thursday, January 15, 2015 9:26 AM To: 최용호; [email protected] Subject: Re: [HCP-Users] Gradient nonlinearity correction (gradient coefficient file) Hi, Please reply to the list for the benefit of others. Siemen's doesn't allow us to directly distribute the gradient coefficient file. The release documentation includes a contact at Siemens that you can request the file from. Be sure he knows that you are requesting the file for the SC72 gradient in the Connectom scanner at WashU. I'm not sure what this process entails, or if Siemen's requires individuals to sign some sort of agreement first. Please report back to the list on your experience. That said, why not just use the preprocessed dMRI that HCP already provides, which already includes all the corrections that you listed (gradient nonlinearity, topup, and eddy current correction)? cheers, -MH -- Michael Harms, Ph.D. ----------------------------------------------------------- Conte Center for the Neuroscience of Mental Disorders Washington University School of Medicine Department of Psychiatry, Box 8134 660 South Euclid Ave. Tel: 314-747-6173 St. Louis, MO 63110 Email: [email protected] From: 최용호 <[email protected]> Date: Thursday, January 15, 2015 9:14 AM To: "Harms, Michael" <[email protected]> Subject: Re: [HCP-Users] Gradient nonlinearity correction (gradient coefficient file) Hi, Michael Harms This is HCP data(HCP Skyra) Becaues HCP data be provided at nifti format, I don't have dicom file. Cheer, Ho 2015-01-15 23:34 GMT+09:00 Harms, Michael <[email protected]>: Hi, Is this HCP data, or data collected on a different Siemens scanner? cheers, -MH -- Michael Harms, Ph.D. ----------------------------------------------------------- Conte Center for the Neuroscience of Mental Disorders Washington University School of Medicine Department of Psychiatry, Box 8134 660 South Euclid Ave. Tel: 314-747-6173 St. Louis, MO 63110 Email: [email protected] From: 최용호 <[email protected]> Date: Thursday, January 15, 2015 2:13 AM To: "[email protected]" <[email protected]> Subject: [HCP-Users] Gradient nonlinearity correction (gradient coefficient file) Hello dear experts, I try to DiffusionMRI pipeline using unprocessed dMRI data. I run to topup, eddy and then perform gradient nonlinearity distortion correction. but I don't know where Siemens gradient coefficient file is. Cheers, Ho _______________________________________________ HCP-Users mailing list [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. _____ 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 _______________________________________________ HCP-Users mailing list [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users
