Re: [Freesurfer] quality T1 for new study
Hi Bruce, Many thanks for your reply. I did run it through recon-all and it seems to give nice results. Still, as I am just a beginner using Freesurfer, I would greatly appreciate it when you would have a look at the output which can be downloaded from 'http://gate.nmr.mgh.harvard.edu/filedrop2/?p=69915f8pefn'. Cheers, Jelmer Van: freesurfer-boun...@nmr.mgh.harvard.edu [freesurfer-boun...@nmr.mgh.harvard.edu] namens Bruce Fischl [fis...@nmr.mgh.harvard.edu] Verzonden: vrijdag 18 april 2014 15:45 Aan: Freesurfer support list Onderwerp: Re: [Freesurfer] quality T1 for new study Hi Jelmer the scan looks quite nice to me. Have you run it through recon-all? That is the best way to get an idea of how well it will work. cheers Bruce On Fri, 18 Apr 2014, Kok, JG (neuro) wrote: > Dear Freesurfer experts, > > I uploaded a .nii.gz file (which can be downloaded from > 'http://gate.nmr.mgh.harvard.edu/filedrop2/?p=7pbsgklemux'). I hope you > would be willing to comment on the quality of this scan for use with > Freesurfer (you can find some parameters below; the scan > was acquired on a 3T Philips scanner). Running it through recon-all seems to > give nice results, but then again, I am in a phase > of running pilots before the start of a new study, and I do not have much > experience with Freesurfer results yet. > > coil: 32 channel > Sequence: T1w_TFE_3D > TFE factor: 256 > Acquisition time: 10:14 > FoV FH256xAP256xRL160 mm > 160 sagittal slices > fold-over direction AP > fat shift direction F > scan mode 3D > > acquisition matrix 256 x 256 > acquisition voxel size 1.00/1.00/1.00 > reconstructed voxel size 1.00/1.00/1.00 > TR shortest (=7.6ms) > TE shortest (=3.5ms) > RF: flip angle 8 degrees > Acceleration: no SENSE > inversion-prepared, inversion delay time: shortest > > Cheers, > > Jelmer Kok > > > De inhoud van dit bericht is vertrouwelijk en alleen bestemd voor de > geadresseerde(n). Anderen dan de geadresseerde(n) mogen > geen gebruik maken van dit bericht, het niet openbaar maken of op enige wijze > verspreiden of vermenigvuldigen. Het UMCG kan niet > aansprakelijk gesteld worden voor een incomplete aankomst of vertraging van > dit verzonden bericht. > > The contents of this message are confidential and only intended for the eyes > of the addressee(s). Others than the addressee(s) > are not allowed to use this message, to make it public or to distribute or > multiply this message in any way. The UMCG cannot be > held responsible for incomplete reception or delay of this transferred > message. > De inhoud van dit bericht is vertrouwelijk en alleen bestemd voor de geadresseerde(n). Anderen dan de geadresseerde(n) mogen geen gebruik maken van dit bericht, het niet openbaar maken of op enige wijze verspreiden of vermenigvuldigen. Het UMCG kan niet aansprakelijk gesteld worden voor een incomplete aankomst of vertraging van dit verzonden bericht. The contents of this message are confidential and only intended for the eyes of the addressee(s). Others than the addressee(s) are not allowed to use this message, to make it public or to distribute or multiply this message in any way. The UMCG cannot be held responsible for incomplete reception or delay of this transferred message. ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu 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 . 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.
Re: [Freesurfer] quality T1 for new study
Hi Jelmer the scan looks quite nice to me. Have you run it through recon-all? That is the best way to get an idea of how well it will work. cheers Bruce On Fri, 18 Apr 2014, Kok, JG (neuro) wrote: Dear Freesurfer experts, I uploaded a .nii.gz file (which can be downloaded from 'http://gate.nmr.mgh.harvard.edu/filedrop2/?p=7pbsgklemux'). I hope you would be willing to comment on the quality of this scan for use with Freesurfer (you can find some parameters below; the scan was acquired on a 3T Philips scanner). Running it through recon-all seems to give nice results, but then again, I am in a phase of running pilots before the start of a new study, and I do not have much experience with Freesurfer results yet. coil: 32 channel Sequence: T1w_TFE_3D TFE factor: 256 Acquisition time: 10:14 FoV FH256xAP256xRL160 mm 160 sagittal slices fold-over direction AP fat shift direction F scan mode 3D acquisition matrix 256 x 256 acquisition voxel size 1.00/1.00/1.00 reconstructed voxel size 1.00/1.00/1.00 TR shortest (=7.6ms) TE shortest (=3.5ms) RF: flip angle 8 degrees Acceleration: no SENSE inversion-prepared, inversion delay time: shortest Cheers, Jelmer Kok De inhoud van dit bericht is vertrouwelijk en alleen bestemd voor de geadresseerde(n). Anderen dan de geadresseerde(n) mogen geen gebruik maken van dit bericht, het niet openbaar maken of op enige wijze verspreiden of vermenigvuldigen. Het UMCG kan niet aansprakelijk gesteld worden voor een incomplete aankomst of vertraging van dit verzonden bericht. The contents of this message are confidential and only intended for the eyes of the addressee(s). Others than the addressee(s) are not allowed to use this message, to make it public or to distribute or multiply this message in any way. The UMCG cannot be held responsible for incomplete reception or delay of this transferred message. ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu 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 . 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.
[Freesurfer] quality T1 for new study
Dear Freesurfer experts, I uploaded a .nii.gz file (which can be downloaded from 'http://gate.nmr.mgh.harvard.edu/filedrop2/?p=7pbsgklemux'). I hope you would be willing to comment on the quality of this scan for use with Freesurfer (you can find some parameters below; the scan was acquired on a 3T Philips scanner). Running it through recon-all seems to give nice results, but then again, I am in a phase of running pilots before the start of a new study, and I do not have much experience with Freesurfer results yet. coil: 32 channel Sequence: T1w_TFE_3D TFE factor: 256 Acquisition time: 10:14 FoV FH256xAP256xRL160 mm 160 sagittal slices fold-over direction AP fat shift direction F scan mode 3D acquisition matrix 256 x 256 acquisition voxel size 1.00/1.00/1.00 reconstructed voxel size 1.00/1.00/1.00 TR shortest (=7.6ms) TE shortest (=3.5ms) RF: flip angle 8 degrees Acceleration: no SENSE inversion-prepared, inversion delay time: shortest Cheers, Jelmer Kok De inhoud van dit bericht is vertrouwelijk en alleen bestemd voor de geadresseerde(n). Anderen dan de geadresseerde(n) mogen geen gebruik maken van dit bericht, het niet openbaar maken of op enige wijze verspreiden of vermenigvuldigen. Het UMCG kan niet aansprakelijk gesteld worden voor een incomplete aankomst of vertraging van dit verzonden bericht. The contents of this message are confidential and only intended for the eyes of the addressee(s). Others than the addressee(s) are not allowed to use this message, to make it public or to distribute or multiply this message in any way. The UMCG cannot be held responsible for incomplete reception or delay of this transferred message. ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu 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 . 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.
