External Email - Use Caution
Hello!
I ran recon-all on my subject, is it possible to create a mask of the midsagittal plane using freesurfer?
Best regards, Sam
I don’t think we ever write out the mid-sagittal plane, but we do compute it when we segment the callosum. You could set the lateral distance to extend the callosum to 0 with -t 0 and then it will only label cc voxels in the mid-sagittal plane
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of Sam W Sent: Friday, August 26, 2022 8:37 PM To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] midsagittal mask
External Email - Use Caution Hello! I ran recon-all on my subject, is it possible to create a mask of the midsagittal plane using freesurfer?
Best regards, Sam
External Email - Use Caution
Hi Bruce,
Thank you for the response! Which freesurfer command do I need to run with -t 0?
Best regards, Sam
On Sat, Aug 27, 2022 at 3:44 AM Fischl, Bruce BFISCHL@mgh.harvard.edu wrote:
I don’t think we ever write out the mid-sagittal plane, but we do compute it when we segment the callosum. You could set the lateral distance to extend the callosum to 0 with -t 0 and then it will only label cc voxels in the mid-sagittal plane
*From:* freesurfer-bounces@nmr.mgh.harvard.edu < freesurfer-bounces@nmr.mgh.harvard.edu> *On Behalf Of *Sam W *Sent:* Friday, August 26, 2022 8:37 PM *To:* Freesurfer support list freesurfer@nmr.mgh.harvard.edu *Subject:* [Freesurfer] midsagittal mask
External Email - Use Caution *Hello!
I ran recon-all on my subject, is it possible to create a mask of the midsagittal plane using freesurfer?
Best regards,
Sam _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://secure-web.cisco.com/1nVcXuwbIwk06A1lHk0N_nOrnwAR0obzPfaAjxFPdY7z7Hl... 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 Mass General Brigham Compliance HelpLine at https://secure-web.cisco.com/10zuDtzNzUgDR5MQHn973zoHV0GRGvTmb1L487UtSD_wM7s... < https://secure-web.cisco.com/10zuDtzNzUgDR5MQHn973zoHV0GRGvTmb1L487UtSD_wM7s... .
mri_cc. Look in the recon-all.log file for an example command line. You may want to change the output file so that you do not overwrite what is there.
On 8/31/2022 9:56 AM, Sam W wrote:
External Email - Use Caution
Hi Bruce,
Thank you for the response! Which freesurfer command do I need to run with -t 0?
Best regards, Sam
On Sat, Aug 27, 2022 at 3:44 AM Fischl, Bruce BFISCHL@mgh.harvard.edu wrote:
I don’t think we ever write out the mid-sagittal plane, but we do compute it when we segment the callosum. You could set the lateral distance to extend the callosum to 0 with -t 0 and then it will only label cc voxels in the mid-sagittal plane *From:* freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> *On Behalf Of *Sam W *Sent:* Friday, August 26, 2022 8:37 PM *To:* Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> *Subject:* [Freesurfer] midsagittal mask * External Email - Use Caution * Hello! I ran recon-all on my subject, is it possible to create a mask of the midsagittal plane using freesurfer? Best regards, Sam _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu *MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be* https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer <https://secure-web.cisco.com/1nVcXuwbIwk06A1lHk0N_nOrnwAR0obzPfaAjxFPdY7z7HlBGkI5eOV-VaiHQpwXro56Y4HuuUuS4SPVMjizYwJfDwHv8R8QZO_ltOHfSRTPM08Ei9n76WPwB6nsgL_ZV_VwZtDSCoc55ifDAfFWYXzsFrsilejKzlvQlsv4je9b6DKoGegdTf9ZdMUYSTIdmqaGq2DIwPVH2SF8Czg3PzurGOUcE7H69MAtEPT86sSyODSkJAZoJaNSRjnuZ4xa1R4mu_ygt7GfTEshmVTYs-I7Z-kEPjbJbkrKaOMH4voRsm3wxFf_g9GyuUa-lM6ws/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer> 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 Mass General Brigham Compliance HelpLine at *MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be* https://www.massgeneralbrigham.org/complianceline <https://secure-web.cisco.com/10zuDtzNzUgDR5MQHn973zoHV0GRGvTmb1L487UtSD_wM7soXpFw6VCLLU1UoSlliY85j9Ilv0qm2E28N0CB2tTlVfQz5FNhh1HRLnRiqU14Pq5a6uiu9108U0bQ84vzkNtjwa7sjad-JamJPkHbV5CHPWqqZUV_qZ-iWz0rh0uzM2JxYtgPV4aX_vn8eFMsMt53QB-coyuhOnDqd1QY2gzhXLemT5Y2Do4qZYzy1UGaF3ZrtRFV-zNe6o6Nxz9MA6B-dTFgmM4Oorl8EOZSH9yy1nf9eyLfiN3_ovlxbiW3ph-E8ZCcJDupLTJiKw9sL/https%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline> <*MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be* https://www.massgeneralbrigham.org/complianceline <https://secure-web.cisco.com/10zuDtzNzUgDR5MQHn973zoHV0GRGvTmb1L487UtSD_wM7soXpFw6VCLLU1UoSlliY85j9Ilv0qm2E28N0CB2tTlVfQz5FNhh1HRLnRiqU14Pq5a6uiu9108U0bQ84vzkNtjwa7sjad-JamJPkHbV5CHPWqqZUV_qZ-iWz0rh0uzM2JxYtgPV4aX_vn8eFMsMt53QB-coyuhOnDqd1QY2gzhXLemT5Y2Do4qZYzy1UGaF3ZrtRFV-zNe6o6Nxz9MA6B-dTFgmM4Oorl8EOZSH9yy1nf9eyLfiN3_ovlxbiW3ph-E8ZCcJDupLTJiKw9sL/https%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline>> .
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Oh, sorry, mri_cc
From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu On Behalf Of Sam W Sent: Wednesday, August 31, 2022 9:57 AM To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] midsagittal mask
External Email - Use Caution Hi Bruce, Thank you for the response! Which freesurfer command do I need to run with -t 0?
Best regards, Sam
On Sat, Aug 27, 2022 at 3:44 AM Fischl, Bruce <BFISCHL@mgh.harvard.edumailto:BFISCHL@mgh.harvard.edu> wrote: I don’t think we ever write out the mid-sagittal plane, but we do compute it when we segment the callosum. You could set the lateral distance to extend the callosum to 0 with -t 0 and then it will only label cc voxels in the mid-sagittal plane
From: freesurfer-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edumailto:freesurfer-bounces@nmr.mgh.harvard.edu> On Behalf Of Sam W Sent: Friday, August 26, 2022 8:37 PM To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edumailto:freesurfer@nmr.mgh.harvard.edu> Subject: [Freesurfer] midsagittal mask
External Email - Use Caution Hello! I ran recon-all on my subject, is it possible to create a mask of the midsagittal plane using freesurfer?
Best regards, Sam _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edumailto:Freesurfer@nmr.mgh.harvard.edu MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurferhttps://secure-web.cisco.com/1nVcXuwbIwk06A1lHk0N_nOrnwAR0obzPfaAjxFPdY7z7HlBGkI5eOV-VaiHQpwXro56Y4HuuUuS4SPVMjizYwJfDwHv8R8QZO_ltOHfSRTPM08Ei9n76WPwB6nsgL_ZV_VwZtDSCoc55ifDAfFWYXzsFrsilejKzlvQlsv4je9b6DKoGegdTf9ZdMUYSTIdmqaGq2DIwPVH2SF8Czg3PzurGOUcE7H69MAtEPT86sSyODSkJAZoJaNSRjnuZ4xa1R4mu_ygt7GfTEshmVTYs-I7Z-kEPjbJbkrKaOMH4voRsm3wxFf_g9GyuUa-lM6ws/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer 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 Mass General Brigham Compliance HelpLine at MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://www.massgeneralbrigham.org/compliancelinehttps://secure-web.cisco.com/10zuDtzNzUgDR5MQHn973zoHV0GRGvTmb1L487UtSD_wM7soXpFw6VCLLU1UoSlliY85j9Ilv0qm2E28N0CB2tTlVfQz5FNhh1HRLnRiqU14Pq5a6uiu9108U0bQ84vzkNtjwa7sjad-JamJPkHbV5CHPWqqZUV_qZ-iWz0rh0uzM2JxYtgPV4aX_vn8eFMsMt53QB-coyuhOnDqd1QY2gzhXLemT5Y2Do4qZYzy1UGaF3ZrtRFV-zNe6o6Nxz9MA6B-dTFgmM4Oorl8EOZSH9yy1nf9eyLfiN3_ovlxbiW3ph-E8ZCcJDupLTJiKw9sL/https%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline <MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://www.massgeneralbrigham.org/compliancelinehttps://secure-web.cisco.com/10zuDtzNzUgDR5MQHn973zoHV0GRGvTmb1L487UtSD_wM7soXpFw6VCLLU1UoSlliY85j9Ilv0qm2E28N0CB2tTlVfQz5FNhh1HRLnRiqU14Pq5a6uiu9108U0bQ84vzkNtjwa7sjad-JamJPkHbV5CHPWqqZUV_qZ-iWz0rh0uzM2JxYtgPV4aX_vn8eFMsMt53QB-coyuhOnDqd1QY2gzhXLemT5Y2Do4qZYzy1UGaF3ZrtRFV-zNe6o6Nxz9MA6B-dTFgmM4Oorl8EOZSH9yy1nf9eyLfiN3_ovlxbiW3ph-E8ZCcJDupLTJiKw9sL/https%3A%2F%2Fwww.massgeneralbrigham.org%2Fcomplianceline> .
freesurfer@nmr.mgh.harvard.edu
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Douglas N. Greve -
Fischl, Bruce -
Sam W