I think the issue, as I read it, is that Will’s data is only NIFTI currently, so he doesn’t have any subject CIFTI that he could use for the stage 1 of dual reg.
Our suggestion of course to remedy that would be that you process your data into CIFTI, using the HCP Pipelines. ☺ Cheers, -MH -- Michael Harms, Ph.D. ----------------------------------------------------------- Associate Professor of Psychiatry Washington University School of Medicine Department of Psychiatry, Box 8134 660 South Euclid Ave. Tel: 314-747-6173 St. Louis, MO 63110 Email: mha...@wustl.edu From: <hcp-users-boun...@humanconnectome.org> on behalf of Stephen Smith <st...@fmrib.ox.ac.uk> Date: Tuesday, March 13, 2018 at 2:31 AM To: Will Khan <khan.wa...@florey.edu.au> Cc: "hcp-users@humanconnectome.org" <hcp-users@humanconnectome.org> Subject: Re: [HCP-Users] Melodic ICA idle Hi Will I'm not aware of any outstanding bugs in melodic that would cause it to silently hang. Are you sure it's not just that you've run out of RAM and are swapping? Yes it's better to do group-ICA on grayordinates. You can still dual-regress that (step one into subject CIFTI, step two back into either CIFIT and/or volume) to get volume maps back, like we did for the most recent group-ICA HCP release. Cheers. On 13 Mar 2018, at 04:52, Will Khan <khan.wa...@florey.edu.au<mailto:khan.wa...@florey.edu.au>> wrote: Dear HCP Users, I am currently using the ICA-FIX denoised volumetric data for 100 unrelated subjects. I come across an issue where melodic appears to 'choke' or remain idle for a considerable amount of time at the variance normalisation step. I am running a group-ICA within a mask of the PCC. I understand this issue has been reported by others and appears to be a bug with the melodic command. I know Steve Smith and others have cautioned against the use of the volumetric data - but I am using the HCP dataset to generate group-ICA maps that I later wish to dualreg onto a patient dataset. Since all my patient data is in NIFTI format I am initially hesitant to use CIFTI (please correct me if I am wrong here). Am I right to be using the volumetric data in this case? Many Thanks! Regards, Will _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org> http://lists.humanconnectome.org/mailman/listinfo/hcp-users --------------------------------------------------------------------------- Stephen M. Smith, Professor of Biomedical Engineering Head of Analysis, Oxford University FMRIB Centre FMRIB, JR Hospital, Headington, Oxford OX3 9DU, UK +44 (0) 1865 222726 (fax 222717) st...@fmrib.ox.ac.uk<mailto:st...@fmrib.ox.ac.uk> http://www.fmrib.ox.ac.uk/~steve --------------------------------------------------------------------------- Stop the cultural destruction of Tibet<http://smithinks.net> _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org 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. _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
