Darn. Alright I will reprocess the fMRI and DTI data. It sounds like the structural pipeline has not been changed so I would not have to reprocess that right?
I am curious are the pipelines associated with the fMRI and DTI data smart enough to overwrite data files or do I have to totally delete files and start over? -Tim Timothy Hendrickson Department of Psychiatry University of Minnesota Office: 612-624-6441 Mobile: 507-259-3434 (texts okay) On Tue, Feb 21, 2017 at 3:34 PM, Glasser, Matthew <[email protected]> wrote: > I had a look over this and there are some important changes for fMRIVolume > (change in the way bias field correction is done) and potentially also some > changes in the diffusion pipeline. While it would probably work fine, I > would recommend rerunning if it isn’t too painful. > > Peace, > > Matt. > > From: <[email protected]> on behalf of Timothy > Hendrickson <[email protected]> > Date: Tuesday, February 21, 2017 at 11:07 AM > To: "Harms, Michael" <[email protected]> > Cc: "[email protected]" <[email protected]> > Subject: Re: [HCP-Users] Variation in HCP Minimal Preprocessing Pipeline > Differences Across Releases > > I can see that several changes/additions have been made to 3.21, but I > asked whether there is a difference in *just* the minimal preprocessing > pipelines (i.e. PreFreeSurfer, FreeSurfer, PostFreeSurfer, fMRIVolume, > fMRISurface, and Diffusion) between 3.4.0 and 3.21. > > I can ask this a different way, do MSMAll, DeDriftAndResample, PostFix, > RestingStateStats, ICAFIX, and TaskfMRIAnalysis scripts rely specifically > on data preprocessed from a particular version? My impression was that > perhaps MSMAll, DeDriftAndResample, PostFix, RestingStateStats, ICAFIX, and > TaskfMRIAnalysis act on top of minimally preprocessed data. Is this wrong? > > -Tim > > Timothy Hendrickson > Department of Psychiatry > University of Minnesota > Office: 612-624-6441 <(612)%20624-6441> > Mobile: 507-259-3434 <(507)%20259-3434> (texts okay) > > On Tue, Feb 21, 2017 at 10:59 AM, Harms, Michael <[email protected]> wrote: > >> >> There have been a lot of changes/additions from 3.4.0 to 3.21. If you >> are starting a new study, it would be preferable for you to start with the >> latest version. >> >> 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 <(314)%20747-6173> >> St. Louis, MO 63110Email: [email protected] >> >> From: <[email protected]> on behalf of Timothy >> Hendrickson <[email protected]> >> Date: Tuesday, February 21, 2017 at 9:38 AM >> To: "[email protected]" <[email protected]> >> Subject: [HCP-Users] Variation in HCP Minimal Preprocessing Pipeline >> Differences Across Releases >> >> Hello, >> >> I have been using version 3.4.0 of the HCP Minimal Preprocessing Pipeline >> to process my HCP compatible data. >> I've used 3.4.0 to run the structural (PreFreeSurfer, FreeSurfer, >> PostFreeSurfer), fMRI (fMRIVolume, and fMRISurface), and diffusion >> sub-pipelines. I have now downloaded version 3.21 and notice several >> additional sub-pipelines such as MSMAll, DeDriftAndResample, PostFix, >> RestingStateStats, ICAFIX, and TaskfMRIAnalysis to name a few. I am curious >> whether I can use minimally preprocessed data from 3.4.0 and shoehorn it >> into the additional sub-pipelines just mentioned. >> >> I am hoping I can get away with not reprocessing all of my data through >> the minimal preprocessing! >> >> Thank you! >> >> -Tim >> >> >> Timothy Hendrickson >> Department of Psychiatry >> University of Minnesota >> Office: 612-624-6441 <(612)%20624-6441> >> Mobile: 507-259-3434 <(507)%20259-3434> (texts okay) >> >> _______________________________________________ >> 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. >> > > _______________________________________________ > 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. > _______________________________________________ HCP-Users mailing list [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users
