There is no shift in freeview. 2017-04-07 16:35 GMT-04:00 Douglas N Greve <gr...@nmr.mgh.harvard.edu>:
> Not yet. Did you try to load it into freeview? If so, do you still see the > shift? > > > On 04/07/2017 04:14 PM, Arnaud Boré wrote: > >> Do you want me to attach/upload a screenshot of the shift ? >> >> 2017-04-07 13:10 GMT-04:00 Arnaud Boré <arnaud.b...@gmail.com <mailto: >> arnaud.b...@gmail.com>>: >> >> I try to view it on O_Nap_04MB. >> >> I've tried these two command lines: >> qdec --table qdec.all_subjs.table.dat --surface >> O_Nap_04MB/surf/rh.pial --label O_Nap_04MB/label/rh.M1_v4.label >> qdec --table qdec.all_subjs.table.dat --average O_Nap_04MB >> --surface O_Nap_04MB/surf/rh.pial --label >> O_Nap_04MB/label/rh.M1_v4.label >> >> I get the same results. >> >> >> 2017-04-07 12:03 GMT-04:00 Douglas N Greve >> <gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu>>: >> >> when you view it in qdec, are you viewing it on fsaverage or >> on O_Nap_04MB ? >> >> >> On 04/07/2017 11:47 AM, Arnaud Boré wrote: >> >> I used this command line: mri_label2label --srclabel >> rh.M1_v4.label --srcsubject fsaverage --trgsubject >> O_Nap_04MB --trglabel rh.M1_v4.label --regmethod surface >> --hemi rh >> The output label overlaps the surface using freeview but >> using qdec it is shifted. >> Thank you for your help. >> Arnaud >> >> 2017-04-07 10:23 GMT-04:00 basile pinsard >> <basile.pins...@gmail.com >> <mailto:basile.pins...@gmail.com> >> <mailto:basile.pins...@gmail.com >> <mailto:basile.pins...@gmail.com>>>: >> >> >> ---------- Forwarded message ---------- >> From: *Douglas N Greve* <gr...@nmr.mgh.harvard.edu >> <mailto:gr...@nmr.mgh.harvard.edu> >> <mailto:gr...@nmr.mgh.harvard.edu >> <mailto:gr...@nmr.mgh.harvard.edu>>> >> Date: Thu, Apr 6, 2017 at 4:53 PM >> Subject: Re: [Freesurfer] QDEC and ROI drawing >> To: freesurfer@nmr.mgh.harvard.edu >> <mailto:freesurfer@nmr.mgh.harvard.edu> >> <mailto:freesurfer@nmr.mgh.harvard.edu >> <mailto:freesurfer@nmr.mgh.harvard.edu>> >> >> >> what is your label2label command line? >> >> >> >> On 04/06/2017 04:52 PM, Arnaud Boré wrote: >> > Dear Freesurfer's experts, >> > I draw a specific region on fsaverage using QDEC, >> then I mapped this >> > label on each subject using mri_label2label. I >> looked at these >> > registered labels using freeview. Most of them are >> perfect but for >> > some of them I would like to correct the >> segmentation. I would >> like to >> > modify it using QDEC but when I overlay this label >> on the surface of >> > my subject it has been shifted. I think this shift >> is because >> QDEC is >> > using fsaverage as the standard space. I try opening >> QDEC using the >> > "average" option and use the subject I want but I >> still get this >> > shift. am I missing something ? >> > Thank you in advance for your help. >> > Arnaud Bore >> > >> > >> > >> > _______________________________________________ >> > Freesurfer mailing list >> > Freesurfer@nmr.mgh.harvard.edu >> <mailto:Freesurfer@nmr.mgh.harvard.edu> >> <mailto:Freesurfer@nmr.mgh.harvard.edu >> <mailto:Freesurfer@nmr.mgh.harvard.edu>> >> > >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> > >> <https://mail.nmr.mgh. >> harvard.edu/mailman/listinfo/freesurfer >> <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> >> >> -- >> Douglas N. Greve, Ph.D. >> MGH-NMR Center >> gr...@nmr.mgh.harvard.edu >> <mailto:gr...@nmr.mgh.harvard.edu> >> <mailto:gr...@nmr.mgh.harvard.edu >> <mailto:gr...@nmr.mgh.harvard.edu>> >> Phone Number: 617-724-2358 <tel:617-724-2358> >> <tel:617-724-2358 <tel:617-724-2358>> >> Fax: 617-726-7422 <tel:617-726-7422> <tel:617-726-7422 >> <tel:617-726-7422>> >> >> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >> <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> >> <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >> <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting>> >> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 >> <https://gate.nmr.mgh.harvard.edu/filedrop2> >> <https://gate.nmr.mgh.harvard.edu/filedrop2 >> <https://gate.nmr.mgh.harvard.edu/filedrop2>> >> www.nmr.mgh.harvard.edu/facility/filedrop/index.html >> <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> >> <http://www.nmr.mgh.harvard.e >> du/facility/filedrop/index.html >> <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html >> >> >> Outgoing: >> ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/grev >> e/ >> <ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/gre >> ve/> >> <ftp://surfer.nmr.mgh. >> harvard.edu/transfer/outgoing/flat/greve/ >> <ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/gre >> ve/>> >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> <mailto:Freesurfer@nmr.mgh.harvard.edu> >> <mailto:Freesurfer@nmr.mgh.harvard.edu >> <mailto:Freesurfer@nmr.mgh.harvard.edu>> >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> > >> <https://mail.nmr.mgh. >> harvard.edu/mailman/listinfo/freesurfer >> <https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> >> >> >> The information in this e-mail is intended only for >> the person to >> whom it is >> addressed. If you believe this e-mail was sent to you >> in error and >> the e-mail >> contains patient information, please contact the Partners >> Compliance HelpLine at >> http://www.partners.org/complianceline >> <http://www.partners.org/complianceline> >> <http://www.partners.org/complianceline >> <http://www.partners.org/complianceline>> . If the e-mail >> was sent >> to you in error >> but does not contain patient information, please >> contact the >> sender and properly >> dispose of the e-mail. >> >> >> >> >> -- Basile Pinsard >> /PhD candidate, >> / >> Laboratoire d'Imagerie Biomédicale, UMR S 1146 / UMR 7371, >> Sorbonne Universités, UPMC, INSERM, CNRS >> /Brain-Cognition-Behaviour Doctoral School /*, *ED3C*, >> *UPMC, >> Sorbonne Universités >> Biomedical Sciences Doctoral School, Faculty of Medicine, >> Université de Montréal >> CRIUGM, Université de Montréal >> >> >> >> >> -- Arnaud BORE >> Research assistant >> Cellulaire : (001) 514-647-8649 <tel:514-647-8649> >> >> >> -- Douglas N. Greve, Ph.D. >> MGH-NMR Center >> gr...@nmr.mgh.harvard.edu <mailto:gr...@nmr.mgh.harvard.edu> >> Phone Number: 617-724-2358 <tel:617-724-2358> >> Fax: 617-726-7422 <tel:617-726-7422> >> >> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >> <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> >> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 >> <https://gate.nmr.mgh.harvard.edu/filedrop2> >> www.nmr.mgh.harvard.edu/facility/filedrop/index.html >> <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> >> Outgoing: >> ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ >> <ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/> >> >> >> >> >> -- Arnaud BORE >> Research assistant >> Cellulaire : (001) 514-647-8649 <tel:%28514%29%20647-8649> >> >> >> >> >> -- >> Arnaud BORE >> Research assistant >> Cellulaire : (001) 514-647-8649 >> >> > -- > Douglas N. Greve, Ph.D. > MGH-NMR Center > gr...@nmr.mgh.harvard.edu > Phone Number: 617-724-2358 > Fax: 617-726-7422 > > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 > www.nmr.mgh.harvard.edu/facility/filedrop/index.html > Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ > > -- Arnaud BORE Research assistant Cellulaire : (001) 514-647-8649
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