Re: [Freesurfer] labels export
And what about exporting as obj format, I have found a function to transform surfaces to obj, is it possible something like this but with the labels?Regards,GabrielEl 24/04/12, Bruce Fischl fis...@nmr.mgh.harvard.edu escribió:they are just ascii files so it should be easy enough to do yourselfOn Tue, 24 Apr 2012, Gabriel Gonzalez Escamilla wrote:Thanks Priti,I've thought about that before, but actually I'm looking for literally .roi images, do you know if is this format possible from FS?Regards,GabrielEl 24/04/12, Priti Srinivasan rspr...@nmr.mgh.harvard.edu escribió: Hi Gabriel, Have you tried mri_label2vol? If you want the volume in the anatomical space: mri_label2vol --label labelname.label --temp T1_template.nii.gz --identity --o volumename.nii.gz If you want it in some other space, you can specify the registration matrix using --reg and the template using --temp. Hope that helps, Priti div style=font-family: 'Times New Roman'; font-size: 16px; divHello FreeSurfers,/divdivbr //divdivDoes any one of you know if exist a function to export labels as a ROI format?/divdivbr //divdivRegards,/divdivGabriel/div/divdivbr /-- br //divdivfont size=3--br /PhD. student Gabriel González-Escamillabr /Laboratory of Functional Neurosciencebr /Department of Physiology, Anatomy, and Cell Biologybr /University Pablo de Olavidebr /Ctra. de Utrera, Km.1br /41013 - Sevillebr /- Spain -br /br /Email: ggon...@upo.esbr /http://www.upo.es/neuroaging/es//font/div ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer ___ 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.PhD. student Gabriel González-EscamillaLaboratory of Functional NeuroscienceDepartment of Physiology, Anatomy, and Cell BiologyUniversity Pablo de OlavideCtra. de Utrera, Km.141013 - Seville- Spain -Email: ggon...@upo.eshttp://www.upo.es/neuroaging/es/-- --PhD. student Gabriel González-EscamillaLaboratory of Functional NeuroscienceDepartment of Physiology, Anatomy, and Cell BiologyUniversity Pablo de OlavideCtra. de Utrera, Km.141013 - Seville- Spain -Email: ggon...@upo.eshttp://www.upo.es/neuroaging/es/ ___ 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] labels export
sorry, I don't know what obj format is either Bruce On Wed, 25 Apr 2012, Gabriel Gonzalez Escamilla wrote: And what about exporting as obj format, I have found a function to transform surfaces to obj, is it possible something like this but with the labels? Regards, Gabriel El 24/04/12, Bruce Fischl fis...@nmr.mgh.harvard.edu escribió: they are just ascii files so it should be easy enough to do yourself On Tue, 24 Apr 2012, Gabriel Gonzalez Escamilla wrote: Thanks Priti, I've thought about that before, but actually I'm looking for literally .roi images, do you know if is this format possible from FS? Regards, Gabriel El 24/04/12, Priti Srinivasan rspr...@nmr.mgh.harvard.edu escribió: Hi Gabriel, Have you tried mri_label2vol? If you want the volume in the anatomical space: mri_label2vol --label labelname.label --temp T1_template.nii.gz --identity --o volumename.nii.gz If you want it in some other space, you can specify the registration matrix using --reg and the template using --temp. Hope that helps, Priti div style=font-family: 'Times New Roman'; font-size: 16px; divHello FreeSurfers,/divdivbr //divdivDoes any one of you know if exist a function to export labels as a ROI format?/divdivbr //divdivRegards,/divdivGabriel/div/divdivbr /-- br //divdivfont size=3--br /PhD. student Gabriel González-Escamillabr /Laboratory of Functional Neurosciencebr /Department of Physiology, Anatomy, and Cell Biologybr /University Pablo de Olavidebr /Ctra. de Utrera, Km.1br /41013 - Sevillebr /- Spain -br /br /Email: ggon...@upo.esbr /http://www.upo.es/neuroaging/es//font/div ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer ___ 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. -- -- PhD. student Gabriel González-Escamilla Laboratory of Functional Neuroscience Department of Physiology, Anatomy, and Cell Biology University Pablo de Olavide Ctra. de Utrera, Km.1 41013 - Seville - Spain - Email: ggon...@upo.es http://www.upo.es/neuroaging/es/ -- -- PhD. student Gabriel González-Escamilla Laboratory of Functional Neuroscience Department of Physiology, Anatomy, and Cell Biology University Pablo de Olavide Ctra. de Utrera, Km.1 41013 - Seville - Spain - Email: ggon...@upo.es http://www.upo.es/neuroaging/es/ ___ 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] labels export
Hello FreeSurfers,Does any one of you know if exist a function to export labels as a ROI format?Regards,Gabriel-- --PhD. student Gabriel González-EscamillaLaboratory of Functional NeuroscienceDepartment of Physiology, Anatomy, and Cell BiologyUniversity Pablo de OlavideCtra. de Utrera, Km.141013 - Seville- Spain -Email: ggon...@upo.eshttp://www.upo.es/neuroaging/es/ ___ 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] labels export
Hi Gabriel, Have you tried mri_label2vol? If you want the volume in the anatomical space: mri_label2vol --label labelname.label --temp T1_template.nii.gz --identity --o volumename.nii.gz If you want it in some other space, you can specify the registration matrix using --reg and the template using --temp. Hope that helps, Priti div style=font-family: 'Times New Roman'; font-size: 16px; divHello FreeSurfers,/divdivbr //divdivDoes any one of you know if exist a function to export labels as a ROI format?/divdivbr //divdivRegards,/divdivGabriel/div/divdivbr /-- br //divdivfont size=3--br /PhD. student Gabriel González-Escamillabr /Laboratory of Functional Neurosciencebr /Department of Physiology, Anatomy, and Cell Biologybr /University Pablo de Olavidebr /Ctra. de Utrera, Km.1br /41013 - Sevillebr /- Spain -br /br /Email: ggon...@upo.esbr /http://www.upo.es/neuroaging/es//font/div ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer ___ 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] labels export
Thanks Priti,I've thought about that before, but actually I'm looking for literally .roi images, do you know if is this format possible from FS?Regards,GabrielEl 24/04/12, Priti Srinivasan rspr...@nmr.mgh.harvard.edu escribió:Hi Gabriel,Have you tried mri_label2vol?If you want the volume in the anatomical space:mri_label2vol --label labelname.label --temp T1_template.nii.gz--identity --o volumename.nii.gzIf you want it in some other space, you can specify the registrationmatrix using --reg and the template using --temp.Hope that helps,Priti div style=font-family: 'Times New Roman'; font-size: 16px; divHello FreeSurfers,/divdivbr //divdivDoes any one of you know if exist a function to export labels as a ROI format?/divdivbr //divdivRegards,/divdivGabriel/div/divdivbr /-- br //divdivfont size=3--br /PhD. student Gabriel González-Escamillabr /Laboratory of Functional Neurosciencebr /Department of Physiology, Anatomy, and Cell Biologybr /University Pablo de Olavidebr /Ctra. de Utrera, Km.1br /41013 - Sevillebr /- Spain -br /br /Email: ggon...@upo.esbr /http://www.upo.es/neuroaging/es//font/div ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer___Freesurfer mailing listFreesurfer@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurferThe information in this e-mail is intended only for the person to whom it isaddressed. If you believe this e-mail was sent to you in error and the e-mailcontains patient information, please contact the Partners Compliance HelpLine athttp://www.partners.org/complianceline . If the e-mail was sent to you in errorbut does not contain patient information, please contact the sender and properlydispose of the e-mail.-- --PhD. student Gabriel González-EscamillaLaboratory of Functional NeuroscienceDepartment of Physiology, Anatomy, and Cell BiologyUniversity Pablo de OlavideCtra. de Utrera, Km.141013 - Seville- Spain -Email: ggon...@upo.eshttp://www.upo.es/neuroaging/es/ ___ 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] labels export
I don't think so. What is .roi format? On 04/24/2012 12:21 PM, Gabriel Gonzalez Escamilla wrote: Thanks Priti, I've thought about that before, but actually I'm looking for literally .roi images, do you know if is this format possible from FS? Regards, Gabriel El 24/04/12, *Priti Srinivasan * rspr...@nmr.mgh.harvard.edu escribió: Hi Gabriel, Have you tried mri_label2vol? If you want the volume in the anatomical space: mri_label2vol --label labelname.label --temp T1_template.nii.gz --identity --o volumename.nii.gz If you want it in some other space, you can specify the registration matrix using --reg and the template using --temp. Hope that helps, Priti div style=font-family: 'Times New Roman'; font-size: 16px; divHello FreeSurfers,/divdivbr //divdivDoes any one of you know if exist a function to export labels as a ROI format?/divdivbr //divdivRegards,/divdivGabriel/div/divdivbr /-- br //divdivfont size=3--br /PhD. student Gabriel González-Escamillabr /Laboratory of Functional Neurosciencebr /Department of Physiology, Anatomy, and Cell Biologybr /University Pablo de Olavidebr /Ctra. de Utrera, Km.1br /41013 - Sevillebr /- Spain -br /br /Email: ggon...@upo.esbr /http://www.upo.es/neuroaging/es//font/div ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer ___ 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. -- -- PhD. student Gabriel González-Escamilla Laboratory of Functional Neuroscience Department of Physiology, Anatomy, and Cell Biology University Pablo de Olavide Ctra. de Utrera, Km.1 41013 - Seville - Spain - Email: ggon...@upo.es http://www.upo.es/neuroaging/es/ ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- 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: www.nmr.mgh.harvard.edu/facility/filedrop/index.html ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Re: [Freesurfer] labels export
they are just ascii files so it should be easy enough to do yourself On Tue, 24 Apr 2012, Gabriel Gonzalez Escamilla wrote: Thanks Priti, I've thought about that before, but actually I'm looking for literally .roi images, do you know if is this format possible from FS? Regards, Gabriel El 24/04/12, Priti Srinivasan rspr...@nmr.mgh.harvard.edu escribió: Hi Gabriel, Have you tried mri_label2vol? If you want the volume in the anatomical space: mri_label2vol --label labelname.label --temp T1_template.nii.gz --identity --o volumename.nii.gz If you want it in some other space, you can specify the registration matrix using --reg and the template using --temp. Hope that helps, Priti div style=font-family: 'Times New Roman'; font-size: 16px; divHello FreeSurfers,/divdivbr //divdivDoes any one of you know if exist a function to export labels as a ROI format?/divdivbr //divdivRegards,/divdivGabriel/div/divdivbr /-- br //divdivfont size=3--br /PhD. student Gabriel González-Escamillabr /Laboratory of Functional Neurosciencebr /Department of Physiology, Anatomy, and Cell Biologybr /University Pablo de Olavidebr /Ctra. de Utrera, Km.1br /41013 - Sevillebr /- Spain -br /br /Email: ggon...@upo.esbr /http://www.upo.es/neuroaging/es//font/div ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer ___ 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. -- -- PhD. student Gabriel González-Escamilla Laboratory of Functional Neuroscience Department of Physiology, Anatomy, and Cell Biology University Pablo de Olavide Ctra. de Utrera, Km.1 41013 - Seville - Spain - Email: ggon...@upo.es http://www.upo.es/neuroaging/es/ ___ 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.
