subject:"Re\: \[Freesurfer\] How to project SPM image"

Re: [Freesurfer] How to project SPM image

2022-07-06 Thread Rachel Wagner

External Email - Use Caution

Thank you very much Bruce, I will give that a try and see if I can ask about 
the command lines!

From: Fischl, Bruce<mailto:bfis...@mgh.harvard.edu>
Sent: July 5, 2022 9:34 AM
To: Freesurfer support list<mailto:freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] How to project SPM image

Hi Rachel

I’ll leave bbreg command lines to others (Doug?), but in general you don’t want 
to base the registration on the inflated since it doesn’t have a meaningful 
location within the volume. I would use the standard bbreg command, then use 
mri_vol2surf to paint what you want onto the surface. Once it is on any surface 
for a subject you should be able to display it on any other surface for that 
same subject (and same hemisphere).
Cheers
Bruce

From: freesurfer-boun...@nmr.mgh.harvard.edu 
 On Behalf Of Rachel Wagner
Sent: Tuesday, July 5, 2022 12:17 AM
To: Freesurfer support list 
Subject: Re: [Freesurfer] How to project SPM image

External Email - Use Caution
Thank you, that would work very well! I’m trying this code without success, am 
I missing a component to display on an inflated surface?

bbregister --mov rReslice_Combined_roi_meanRD.nii --bold \ inflated -overlay 
--s  fsaverage \ --init-rr --lta register.lta

From: Fischl, Bruce<mailto:bfis...@mgh.harvard.edu>
Sent: July 4, 2022 3:45 PM
To: Freesurfer support list<mailto:freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] How to project SPM image

Well you can display it on inflated surfaces instead of white ones, which will 
remove most of the folds. Then you can smooth the surface overlay however you 
like (the colors on the surface) in freeview

From: 
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>

mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
 On Behalf Of Rachel Wagner
Sent: Monday, July 4, 2022 3:27 PM
To: Freesurfer support list 
mailto:freesurfer@nmr.mgh.harvard.edu>>
Subject: Re: [Freesurfer] How to project SPM image

External Email - Use Caution
Thank you, noted!

I think I am on the right track, but I’d like to smooth the surface out 
(particularly the coloring and the sulci, which are quite deep) considerably – 
is there any way for me to do that?

From: Fischl, Bruce<mailto:bfis...@mgh.harvard.edu>
Sent: July 3, 2022 7:44 PM
To: Freesurfer support list<mailto:freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] How to project SPM image

I see, and what’s wrong with the screen shot you have? (and “Bruce” is fine).

From: 
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>

mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
 On Behalf Of Rachel Wagner
Sent: Sunday, July 3, 2022 7:41 PM
To: Freesurfer support list 
mailto:freesurfer@nmr.mgh.harvard.edu>>
Subject: Re: [Freesurfer] How to project SPM image

External Email - Use Caution
Hi Dr. Fischl,

My apologies, I don’t have much of a background in software generally!

For the SPM image, I used the AAL atlas to label lesioned brain regions and 
colored by frequency to generate the heatmap. Image dimensions: 1x1x1, Image 
Size [91 109 91], Pixel Dimensions [2 2 2], Bits Per Pixel: 32. I will map onto 
fsaverage!

I’m hoping to display it as a heatmap on an average surface, to look something 
like this: MailScanner has detected a possible fraud attempt from 
"secure-web.cisco.com" claiming to be | Decreased functional connectivity from 
Wernicke's area homologue in... | Download Scientific Diagram 
(researchgate.net)<https://secure-web.cisco.com/1oOMXS4Xcve-ZJ8PxylSUuZevRGR5aotHueMxgJxcMGkXSkjJ6wTsTr4oavOgdzgC__DuhBfa2YoeXPPAkWNDkDveceWCqonnMePOe7RO8-EzKOCNiY55G6RP0RxIqcSzGoy5xrThG11tzNHAx4J2oOvo_ESpDm-Xy5SRds7mHaMi14AVwz97DtG6A7__AhYWMzxD1DhY1be4RuervQ_3GhIJP9U47Jlyf-6BJDot29n-DzmhaePM1AHaWepGK-h2DLlNNr5gjpR4VuJMYqBEkqYBtAH7eWX7f2lcu_279ka4M5ClsgZa3q8hqXJMfnAB0nP3mVb7RfWqryW2ibpstA/https%3A%2F%2Fwww.researchgate.net%2Ffigure%2FDecreased-functional-connectivity-from-Wernickes-area-homologue-in-children-born-VPT_fig3_329809185>

This is a screenshot of what I currently have within FreeSurfer: MailScanner 
has detected a possible fraud attempt from "secure-web.cisco.com" claiming to 
be 
https://secure-web.cisco.com/1ooS-r-4oGHlyeFKwoHAT8TeYO1EfFdqNXuupuF2g2w_BV1upskV1XlGkYmcg3-P40ozqq7Ox1x1TvlWm9nW7QDCSCMt67OFME_Eua8LeSqKM22GlkfER-EupC1PoCGoaepbFyKJqrRQcXJoS3hr1dUGnR-jst1k148TpTpcXrLMFkJNjAwG5u68Gyx4uGBuuQpPhpwinSEyYbkMp5V9CTKsMQs9K9xw9ofwlqVMJJ0pMXzoE5_bqaa_Y5xqviRfPhRLmaFwuLxrmZja1hMNyo5WJJFM6ma6FPV61exqI_ZlktE4dAYETqIRTkAg6oFPCSRzRonIUriccquPVkP9BBUvQJmqJddhhOQykn3AyVK0/https%3A%2F%2Fdrive.google.com%2Ffile%2Fd%2F150V0yIx6T1oSiCwiFmFiKU9rbNk1BfhD%2Fview%3Fusp%3Dsharing<https://secure-web.cisco.com/117

Re: [Freesurfer] How to project SPM image

2022-07-05 Thread Fischl, Bruce

Hi Rachel

I'll leave bbreg command lines to others (Doug?), but in general you don't want 
to base the registration on the inflated since it doesn't have a meaningful 
location within the volume. I would use the standard bbreg command, then use 
mri_vol2surf to paint what you want onto the surface. Once it is on any surface 
for a subject you should be able to display it on any other surface for that 
same subject (and same hemisphere).
Cheers
Bruce

From: freesurfer-boun...@nmr.mgh.harvard.edu 
 On Behalf Of Rachel Wagner
Sent: Tuesday, July 5, 2022 12:17 AM
To: Freesurfer support list 
Subject: Re: [Freesurfer] How to project SPM image


External Email - Use Caution
Thank you, that would work very well! I'm trying this code without success, am 
I missing a component to display on an inflated surface?

bbregister --mov rReslice_Combined_roi_meanRD.nii --bold \ inflated -overlay 
--s  fsaverage \ --init-rr --lta register.lta

From: Fischl, Bruce<mailto:bfis...@mgh.harvard.edu>
Sent: July 4, 2022 3:45 PM
To: Freesurfer support list<mailto:freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] How to project SPM image

Well you can display it on inflated surfaces instead of white ones, which will 
remove most of the folds. Then you can smooth the surface overlay however you 
like (the colors on the surface) in freeview

From: 
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>
 
mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
 On Behalf Of Rachel Wagner
Sent: Monday, July 4, 2022 3:27 PM
To: Freesurfer support list 
mailto:freesurfer@nmr.mgh.harvard.edu>>
Subject: Re: [Freesurfer] How to project SPM image


External Email - Use Caution
Thank you, noted!

I think I am on the right track, but I'd like to smooth the surface out 
(particularly the coloring and the sulci, which are quite deep) considerably - 
is there any way for me to do that?

From: Fischl, Bruce<mailto:bfis...@mgh.harvard.edu>
Sent: July 3, 2022 7:44 PM
To: Freesurfer support list<mailto:freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] How to project SPM image

I see, and what's wrong with the screen shot you have? (and "Bruce" is fine).

From: 
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>
 
mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
 On Behalf Of Rachel Wagner
Sent: Sunday, July 3, 2022 7:41 PM
To: Freesurfer support list 
mailto:freesurfer@nmr.mgh.harvard.edu>>
Subject: Re: [Freesurfer] How to project SPM image


External Email - Use Caution
Hi Dr. Fischl,

My apologies, I don't have much of a background in software generally!

For the SPM image, I used the AAL atlas to label lesioned brain regions and 
colored by frequency to generate the heatmap. Image dimensions: 1x1x1, Image 
Size [91 109 91], Pixel Dimensions [2 2 2], Bits Per Pixel: 32. I will map onto 
fsaverage!

I'm hoping to display it as a heatmap on an average surface, to look something 
like this: MailScanner has detected a possible fraud attempt from 
"secure-web.cisco.com" claiming to be | Decreased functional connectivity from 
Wernicke's area homologue in... | Download Scientific Diagram 
(researchgate.net)<https://secure-web.cisco.com/1oOMXS4Xcve-ZJ8PxylSUuZevRGR5aotHueMxgJxcMGkXSkjJ6wTsTr4oavOgdzgC__DuhBfa2YoeXPPAkWNDkDveceWCqonnMePOe7RO8-EzKOCNiY55G6RP0RxIqcSzGoy5xrThG11tzNHAx4J2oOvo_ESpDm-Xy5SRds7mHaMi14AVwz97DtG6A7__AhYWMzxD1DhY1be4RuervQ_3GhIJP9U47Jlyf-6BJDot29n-DzmhaePM1AHaWepGK-h2DLlNNr5gjpR4VuJMYqBEkqYBtAH7eWX7f2lcu_279ka4M5ClsgZa3q8hqXJMfnAB0nP3mVb7RfWqryW2ibpstA/https%3A%2F%2Fwww.researchgate.net%2Ffigure%2FDecreased-functional-connectivity-from-Wernickes-area-homologue-in-children-born-VPT_fig3_329809185>

This is a screenshot of what I currently have within FreeSurfer: MailScanner 
has detected a possible fraud attempt from "secure-web.cisco.com" claiming to 
be 
https://drive.google.com/file/d/150V0yIx6T1oSiCwiFmFiKU9rbNk1BfhD/view?usp=sharing<https://secure-web.cisco.com/117ePUqDOWTzA8pswn-Mibsr2qBEZIMKV-Yd9P886w1Gz_L53sraXddp6xh_K6otFd1qp6tl3kHUNUk5TqYrNzizCdMJEp5zKR4XRSMj-pTdv0Us9VNWBasmYcsRRwLCrbr56qNZWBqSCMo1n9uuDVn2jwX3TJvflVYJ5eFy_AeuSRsYP4IZpVfIgQa_M_jpxzqEUcOyymM_iHc8lqsaOMkCXyzUnvQHwgy4EzHxKFkCoCHHa5jVAf9Gnol0mf4Yr2C8MosmAo4UiuPBgk6J_IX3DQcx-3NEMfUZdj7TOzoVG7H3Nuaid0CL4spvphW5d5l6r4qJCNk1rNi9tIb_xxQ/https%3A%2F%2Fdrive.google.com%2Ffile%2Fd%2F150V0yIx6T1oSiCwiFmFiKU9rbNk1BfhD%2Fview%3Fusp%3Dsharing>

Thank you very much again for your help!
Rachel


From: 
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>
 
mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
 on behalf of Fischl, Bruce 
mailto:bfis...@mgh.harvard.edu>>
Sent: Sunday, July 3, 2022 6:37:42 PM
To: Freesurfer support list 
mailto:freesurfer@nmr.mgh.harvard.edu>>
Subject: Re: [Freesurfer] How to project SPM image

Re: [Freesurfer] How to project SPM image

2022-07-04 Thread Rachel Wagner

External Email - Use Caution

Thank you, that would work very well! I’m trying this code without success, am 
I missing a component to display on an inflated surface?

bbregister --mov rReslice_Combined_roi_meanRD.nii --bold \ inflated -overlay 
--s  fsaverage \ --init-rr --lta register.lta

From: Fischl, Bruce<mailto:bfis...@mgh.harvard.edu>
Sent: July 4, 2022 3:45 PM
To: Freesurfer support list<mailto:freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] How to project SPM image

Well you can display it on inflated surfaces instead of white ones, which will 
remove most of the folds. Then you can smooth the surface overlay however you 
like (the colors on the surface) in freeview

From: freesurfer-boun...@nmr.mgh.harvard.edu 
 On Behalf Of Rachel Wagner
Sent: Monday, July 4, 2022 3:27 PM
To: Freesurfer support list 
Subject: Re: [Freesurfer] How to project SPM image


External Email - Use Caution
Thank you, noted!

I think I am on the right track, but I’d like to smooth the surface out 
(particularly the coloring and the sulci, which are quite deep) considerably – 
is there any way for me to do that?

From: Fischl, Bruce<mailto:bfis...@mgh.harvard.edu>
Sent: July 3, 2022 7:44 PM
To: Freesurfer support list<mailto:freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] How to project SPM image

I see, and what’s wrong with the screen shot you have? (and “Bruce” is fine).

From: 
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>
 
mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
 On Behalf Of Rachel Wagner
Sent: Sunday, July 3, 2022 7:41 PM
To: Freesurfer support list 
mailto:freesurfer@nmr.mgh.harvard.edu>>
Subject: Re: [Freesurfer] How to project SPM image


External Email - Use Caution
Hi Dr. Fischl,

My apologies, I don’t have much of a background in software generally!

For the SPM image, I used the AAL atlas to label lesioned brain regions and 
colored by frequency to generate the heatmap. Image dimensions: 1x1x1, Image 
Size [91 109 91], Pixel Dimensions [2 2 2], Bits Per Pixel: 32. I will map onto 
fsaverage!

I’m hoping to display it as a heatmap on an average surface, to look something 
like this: MailScanner has detected a possible fraud attempt from 
"secure-web.cisco.com" claiming to be | Decreased functional connectivity from 
Wernicke's area homologue in... | Download Scientific Diagram 
(researchgate.net)<https://secure-web.cisco.com/1oOMXS4Xcve-ZJ8PxylSUuZevRGR5aotHueMxgJxcMGkXSkjJ6wTsTr4oavOgdzgC__DuhBfa2YoeXPPAkWNDkDveceWCqonnMePOe7RO8-EzKOCNiY55G6RP0RxIqcSzGoy5xrThG11tzNHAx4J2oOvo_ESpDm-Xy5SRds7mHaMi14AVwz97DtG6A7__AhYWMzxD1DhY1be4RuervQ_3GhIJP9U47Jlyf-6BJDot29n-DzmhaePM1AHaWepGK-h2DLlNNr5gjpR4VuJMYqBEkqYBtAH7eWX7f2lcu_279ka4M5ClsgZa3q8hqXJMfnAB0nP3mVb7RfWqryW2ibpstA/https%3A%2F%2Fwww.researchgate.net%2Ffigure%2FDecreased-functional-connectivity-from-Wernickes-area-homologue-in-children-born-VPT_fig3_329809185>

This is a screenshot of what I currently have within FreeSurfer: MailScanner 
has detected a possible fraud attempt from "secure-web.cisco.com" claiming to 
be 
https://secure-web.cisco.com/1x9o8bxkk43qmiWQ2TZujpnjUHXaryQQ2Df4xQliCpOLAWdcyM3Yk1e05TwAMsWC6Ak5C4lQKr_Z7v8rJtn0RkilCCuR6GyFYXOtqlvJBf6rlhhTdbZe4NRZhPuu37fkdRBD11rmnQNnvmGISAKj3CcsQTTIFjc7jwqJ2qQG4PoDbzbC66GPggmQbm2nJddpH7NSDPpgwmuVIxnG8BLaSfbYXfTTvuzFBrOZIgAJcCds8EXTPrAnVddjnepj8E1eNyrZowDLGYvCoU1u0KyxihOYOPWsUkAg8Cpzb13Snkybje9ll9O1IDkReNw0mesPESxe8VNGJT80Odjz-b4fe5Q/https%3A%2F%2Fdrive.google.com%2Ffile%2Fd%2F150V0yIx6T1oSiCwiFmFiKU9rbNk1BfhD%2Fview%3Fusp%3Dsharing<https://secure-web.cisco.com/117ePUqDOWTzA8pswn-Mibsr2qBEZIMKV-Yd9P886w1Gz_L53sraXddp6xh_K6otFd1qp6tl3kHUNUk5TqYrNzizCdMJEp5zKR4XRSMj-pTdv0Us9VNWBasmYcsRRwLCrbr56qNZWBqSCMo1n9uuDVn2jwX3TJvflVYJ5eFy_AeuSRsYP4IZpVfIgQa_M_jpxzqEUcOyymM_iHc8lqsaOMkCXyzUnvQHwgy4EzHxKFkCoCHHa5jVAf9Gnol0mf4Yr2C8MosmAo4UiuPBgk6J_IX3DQcx-3NEMfUZdj7TOzoVG7H3Nuaid0CL4spvphW5d5l6r4qJCNk1rNi9tIb_xxQ/https%3A%2F%2Fdrive.google.com%2Ffile%2Fd%2F150V0yIx6T1oSiCwiFmFiKU9rbNk1BfhD%2Fview%3Fusp%3Dsharing>

Thank you very much again for your help!
Rachel


From: 
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>
 
mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
 on behalf of Fischl, Bruce 
mailto:bfis...@mgh.harvard.edu>>
Sent: Sunday, July 3, 2022 6:37:42 PM
To: Freesurfer support list 
mailto:freesurfer@nmr.mgh.harvard.edu>>
Subject: Re: [Freesurfer] How to project SPM image


Can you give us more details? How did you create the 
rReslice_Combined_roi_meanRD.nii? What resolution is it? And how are you trying 
to display it? On an average surface? Why are you mapping it to bert and not 
fsaverage?



From: 
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>
 
mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
 On Behalf Of Rachel Wagner
Sent:

Re: [Freesurfer] How to project SPM image

2022-07-04 Thread Fischl, Bruce

Well you can display it on inflated surfaces instead of white ones, which will 
remove most of the folds. Then you can smooth the surface overlay however you 
like (the colors on the surface) in freeview

From: freesurfer-boun...@nmr.mgh.harvard.edu 
 On Behalf Of Rachel Wagner
Sent: Monday, July 4, 2022 3:27 PM
To: Freesurfer support list 
Subject: Re: [Freesurfer] How to project SPM image

External Email - Use Caution
Thank you, noted!

I think I am on the right track, but I'd like to smooth the surface out 
(particularly the coloring and the sulci, which are quite deep) considerably - 
is there any way for me to do that?

From: Fischl, Bruce<mailto:bfis...@mgh.harvard.edu>
Sent: July 3, 2022 7:44 PM
To: Freesurfer support list<mailto:freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] How to project SPM image

I see, and what's wrong with the screen shot you have? (and "Bruce" is fine).

From: 
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>

mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
 On Behalf Of Rachel Wagner
Sent: Sunday, July 3, 2022 7:41 PM
To: Freesurfer support list 
mailto:freesurfer@nmr.mgh.harvard.edu>>
Subject: Re: [Freesurfer] How to project SPM image

External Email - Use Caution
Hi Dr. Fischl,

My apologies, I don't have much of a background in software generally!

For the SPM image, I used the AAL atlas to label lesioned brain regions and 
colored by frequency to generate the heatmap. Image dimensions: 1x1x1, Image 
Size [91 109 91], Pixel Dimensions [2 2 2], Bits Per Pixel: 32. I will map onto 
fsaverage!

I'm hoping to display it as a heatmap on an average surface, to look something 
like this: MailScanner has detected a possible fraud attempt from 
"secure-web.cisco.com" claiming to be | Decreased functional connectivity from 
Wernicke's area homologue in... | Download Scientific Diagram 
(researchgate.net)<https://secure-web.cisco.com/1oOMXS4Xcve-ZJ8PxylSUuZevRGR5aotHueMxgJxcMGkXSkjJ6wTsTr4oavOgdzgC__DuhBfa2YoeXPPAkWNDkDveceWCqonnMePOe7RO8-EzKOCNiY55G6RP0RxIqcSzGoy5xrThG11tzNHAx4J2oOvo_ESpDm-Xy5SRds7mHaMi14AVwz97DtG6A7__AhYWMzxD1DhY1be4RuervQ_3GhIJP9U47Jlyf-6BJDot29n-DzmhaePM1AHaWepGK-h2DLlNNr5gjpR4VuJMYqBEkqYBtAH7eWX7f2lcu_279ka4M5ClsgZa3q8hqXJMfnAB0nP3mVb7RfWqryW2ibpstA/https%3A%2F%2Fwww.researchgate.net%2Ffigure%2FDecreased-functional-connectivity-from-Wernickes-area-homologue-in-children-born-VPT_fig3_329809185>

This is a screenshot of what I currently have within FreeSurfer: MailScanner 
has detected a possible fraud attempt from "secure-web.cisco.com" claiming to 
be 
https://drive.google.com/file/d/150V0yIx6T1oSiCwiFmFiKU9rbNk1BfhD/view?usp=sharing<https://secure-web.cisco.com/117ePUqDOWTzA8pswn-Mibsr2qBEZIMKV-Yd9P886w1Gz_L53sraXddp6xh_K6otFd1qp6tl3kHUNUk5TqYrNzizCdMJEp5zKR4XRSMj-pTdv0Us9VNWBasmYcsRRwLCrbr56qNZWBqSCMo1n9uuDVn2jwX3TJvflVYJ5eFy_AeuSRsYP4IZpVfIgQa_M_jpxzqEUcOyymM_iHc8lqsaOMkCXyzUnvQHwgy4EzHxKFkCoCHHa5jVAf9Gnol0mf4Yr2C8MosmAo4UiuPBgk6J_IX3DQcx-3NEMfUZdj7TOzoVG7H3Nuaid0CL4spvphW5d5l6r4qJCNk1rNi9tIb_xxQ/https%3A%2F%2Fdrive.google.com%2Ffile%2Fd%2F150V0yIx6T1oSiCwiFmFiKU9rbNk1BfhD%2Fview%3Fusp%3Dsharing>

Thank you very much again for your help!
Rachel

From: 
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>

mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
 on behalf of Fischl, Bruce 
mailto:bfis...@mgh.harvard.edu>>
Sent: Sunday, July 3, 2022 6:37:42 PM
To: Freesurfer support list 
mailto:freesurfer@nmr.mgh.harvard.edu>>
Subject: Re: [Freesurfer] How to project SPM image

Can you give us more details? How did you create the 
rReslice_Combined_roi_meanRD.nii? What resolution is it? And how are you trying 
to display it? On an average surface? Why are you mapping it to bert and not 
fsaverage?

From: 
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>

mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
 On Behalf Of Rachel Wagner
Sent: Sunday, July 3, 2022 6:26 PM
To: Freesurfer support list 
mailto:freesurfer@nmr.mgh.harvard.edu>>
Subject: Re: [Freesurfer] How to project SPM image

External Email - Use Caution

Hello Dr. Fischl, thank you for your reply, it is much appreciated.

I am trying to cortically project my spm lesion location/frequency map, 
according to instructions linked here: AnalyzingData/MNE_SPM2Freesurfer - Meg 
Wiki 
(cam.ac.uk)<https://secure-web.cisco.com/1Qq-eLDAcZvkiA1oj8V5IkWowioqEfn5og-amJx-SY4k1in27LFW-IYPjtKPBkz1pSyyypTf849rJVAmyJ-Xzl8hgSfRw_PnCU1IcK9vgJzylh5b5zbo__pkcMlQw3COQCtiD9Sjb3UUrTitRCZHp7K2aER3VxlzHcdNjLpvYNT25_gZPm3q08d1C6zm3oJAaOEzRs2pM7XWXRyfFr4kIvENC6HRC5Rym2tl9beh-v6o3WhIxUvTxUqG9UKik41wBeLCBHAlxXgQSjetU13wcX3LQV4OqWruZLoxxbjFjgttUeagi7QRPA8pJi6cegsKrkFGhnEdEFvpjRnL8d5vHBg/https%3A%2F%2Fimaging.mrc-cbu.cam.ac.uk%2Fmeg%2FAnalyzingData%2FMNE_SPM2Freesurfer>

Re: [Freesurfer] How to project SPM image

2022-07-04 Thread Rachel Wagner

External Email - Use Caution

Thank you, noted!

I think I am on the right track, but I’d like to smooth the surface out 
(particularly the coloring and the sulci, which are quite deep) considerably – 
is there any way for me to do that?

From: Fischl, Bruce<mailto:bfis...@mgh.harvard.edu>
Sent: July 3, 2022 7:44 PM
To: Freesurfer support list<mailto:freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] How to project SPM image

I see, and what’s wrong with the screen shot you have? (and “Bruce” is fine).

From: freesurfer-boun...@nmr.mgh.harvard.edu 
 On Behalf Of Rachel Wagner
Sent: Sunday, July 3, 2022 7:41 PM
To: Freesurfer support list 
Subject: Re: [Freesurfer] How to project SPM image


External Email - Use Caution
Hi Dr. Fischl,

My apologies, I don’t have much of a background in software generally!

For the SPM image, I used the AAL atlas to label lesioned brain regions and 
colored by frequency to generate the heatmap. Image dimensions: 1x1x1, Image 
Size [91 109 91], Pixel Dimensions [2 2 2], Bits Per Pixel: 32. I will map onto 
fsaverage!

I’m hoping to display it as a heatmap on an average surface, to look something 
like this: MailScanner has detected a possible fraud attempt from 
"secure-web.cisco.com" claiming to be | Decreased functional connectivity from 
Wernicke's area homologue in... | Download Scientific Diagram 
(researchgate.net)<https://secure-web.cisco.com/1oOMXS4Xcve-ZJ8PxylSUuZevRGR5aotHueMxgJxcMGkXSkjJ6wTsTr4oavOgdzgC__DuhBfa2YoeXPPAkWNDkDveceWCqonnMePOe7RO8-EzKOCNiY55G6RP0RxIqcSzGoy5xrThG11tzNHAx4J2oOvo_ESpDm-Xy5SRds7mHaMi14AVwz97DtG6A7__AhYWMzxD1DhY1be4RuervQ_3GhIJP9U47Jlyf-6BJDot29n-DzmhaePM1AHaWepGK-h2DLlNNr5gjpR4VuJMYqBEkqYBtAH7eWX7f2lcu_279ka4M5ClsgZa3q8hqXJMfnAB0nP3mVb7RfWqryW2ibpstA/https%3A%2F%2Fwww.researchgate.net%2Ffigure%2FDecreased-functional-connectivity-from-Wernickes-area-homologue-in-children-born-VPT_fig3_329809185>

This is a screenshot of what I currently have within FreeSurfer: MailScanner 
has detected a possible fraud attempt from "secure-web.cisco.com" claiming to 
be 
https://secure-web.cisco.com/1W1qPJh0LIQdhLZew9v66ICIq4AvFY0hvWp5vgpcvBdzUKGZmY54EGMZenEAene3E3PkxgNm-WnN0ULTb_AGcyFw4saW8gnst6T4WViac5p4fpdnnJD8Sv1QBTSGAPEgOYU-sgVpXFSro7OCJZqJtYI15R-7QxNDEUuL0Nc0mwcrUAHyczg5mgfjJuEMovWqMPGnXZM55wsRRI9UBy2A2dEn_MHXazZNOKTPgsXapUrvtr9zOXXji83wyE62F0Myqf7fztA84aBgQBiVF770eJLM4kF-mBD6a7Pt49hcwX6xTZqdOsWpMMp1WLAyozpFnbk_1E4YjHgRskzt1Atuty8UVtCliDjbtsuTCdHuZ1tM/https%3A%2F%2Fdrive.google.com%2Ffile%2Fd%2F150V0yIx6T1oSiCwiFmFiKU9rbNk1BfhD%2Fview%3Fusp%3Dsharing<https://secure-web.cisco.com/117ePUqDOWTzA8pswn-Mibsr2qBEZIMKV-Yd9P886w1Gz_L53sraXddp6xh_K6otFd1qp6tl3kHUNUk5TqYrNzizCdMJEp5zKR4XRSMj-pTdv0Us9VNWBasmYcsRRwLCrbr56qNZWBqSCMo1n9uuDVn2jwX3TJvflVYJ5eFy_AeuSRsYP4IZpVfIgQa_M_jpxzqEUcOyymM_iHc8lqsaOMkCXyzUnvQHwgy4EzHxKFkCoCHHa5jVAf9Gnol0mf4Yr2C8MosmAo4UiuPBgk6J_IX3DQcx-3NEMfUZdj7TOzoVG7H3Nuaid0CL4spvphW5d5l6r4qJCNk1rNi9tIb_xxQ/https%3A%2F%2Fdrive.google.com%2Ffile%2Fd%2F150V0yIx6T1oSiCwiFmFiKU9rbNk1BfhD%2Fview%3Fusp%3Dsharing>

Thank you very much again for your help!
Rachel


From: 
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>
 
mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
 on behalf of Fischl, Bruce 
mailto:bfis...@mgh.harvard.edu>>
Sent: Sunday, July 3, 2022 6:37:42 PM
To: Freesurfer support list 
mailto:freesurfer@nmr.mgh.harvard.edu>>
Subject: Re: [Freesurfer] How to project SPM image


Can you give us more details? How did you create the 
rReslice_Combined_roi_meanRD.nii? What resolution is it? And how are you trying 
to display it? On an average surface? Why are you mapping it to bert and not 
fsaverage?



From: 
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>
 
mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
 On Behalf Of Rachel Wagner
Sent: Sunday, July 3, 2022 6:26 PM
To: Freesurfer support list 
mailto:freesurfer@nmr.mgh.harvard.edu>>
Subject: Re: [Freesurfer] How to project SPM image



External Email - Use Caution

Hello Dr. Fischl, thank you for your reply, it is much appreciated.



I am trying to cortically project my spm lesion location/frequency map, 
according to instructions linked here: AnalyzingData/MNE_SPM2Freesurfer - Meg 
Wiki 
(cam.ac.uk)<https://secure-web.cisco.com/1Qq-eLDAcZvkiA1oj8V5IkWowioqEfn5og-amJx-SY4k1in27LFW-IYPjtKPBkz1pSyyypTf849rJVAmyJ-Xzl8hgSfRw_PnCU1IcK9vgJzylh5b5zbo__pkcMlQw3COQCtiD9Sjb3UUrTitRCZHp7K2aER3VxlzHcdNjLpvYNT25_gZPm3q08d1C6zm3oJAaOEzRs2pM7XWXRyfFr4kIvENC6HRC5Rym2tl9beh-v6o3WhIxUvTxUqG9UKik41wBeLCBHAlxXgQSjetU13wcX3LQV4OqWruZLoxxbjFjgttUeagi7QRPA8pJi6cegsKrkFGhnEdEFvpjRnL8d5vHBg/https%3A%2F%2Fimaging.mrc-cbu.cam.ac.uk%2Fmeg%2FAnalyzingData%2FMNE_SPM2Freesurfer>



I have used the following code: bbregister --mov 
rReslice_Combined_roi_meanRD.nii --bold \ --s bert \ --init-rr --lta 
register.lta

Re: [Freesurfer] How to project SPM image

2022-07-03 Thread Fischl, Bruce

I see, and what's wrong with the screen shot you have? (and "Bruce" is fine).

From: freesurfer-boun...@nmr.mgh.harvard.edu 
 On Behalf Of Rachel Wagner
Sent: Sunday, July 3, 2022 7:41 PM
To: Freesurfer support list 
Subject: Re: [Freesurfer] How to project SPM image

External Email - Use Caution
Hi Dr. Fischl,

My apologies, I don't have much of a background in software generally!

For the SPM image, I used the AAL atlas to label lesioned brain regions and 
colored by frequency to generate the heatmap. Image dimensions: 1x1x1, Image 
Size [91 109 91], Pixel Dimensions [2 2 2], Bits Per Pixel: 32. I will map onto 
fsaverage!

I'm hoping to display it as a heatmap on an average surface, to look something 
like this: MailScanner has detected a possible fraud attempt from 
"secure-web.cisco.com" claiming to be | Decreased functional connectivity from 
Wernicke's area homologue in... | Download Scientific Diagram 
(researchgate.net)<https://secure-web.cisco.com/1oOMXS4Xcve-ZJ8PxylSUuZevRGR5aotHueMxgJxcMGkXSkjJ6wTsTr4oavOgdzgC__DuhBfa2YoeXPPAkWNDkDveceWCqonnMePOe7RO8-EzKOCNiY55G6RP0RxIqcSzGoy5xrThG11tzNHAx4J2oOvo_ESpDm-Xy5SRds7mHaMi14AVwz97DtG6A7__AhYWMzxD1DhY1be4RuervQ_3GhIJP9U47Jlyf-6BJDot29n-DzmhaePM1AHaWepGK-h2DLlNNr5gjpR4VuJMYqBEkqYBtAH7eWX7f2lcu_279ka4M5ClsgZa3q8hqXJMfnAB0nP3mVb7RfWqryW2ibpstA/https%3A%2F%2Fwww.researchgate.net%2Ffigure%2FDecreased-functional-connectivity-from-Wernickes-area-homologue-in-children-born-VPT_fig3_329809185>

This is a screenshot of what I currently have within FreeSurfer: MailScanner 
has detected a possible fraud attempt from "secure-web.cisco.com" claiming to 
be 
https://drive.google.com/file/d/150V0yIx6T1oSiCwiFmFiKU9rbNk1BfhD/view?usp=sharing<https://secure-web.cisco.com/117ePUqDOWTzA8pswn-Mibsr2qBEZIMKV-Yd9P886w1Gz_L53sraXddp6xh_K6otFd1qp6tl3kHUNUk5TqYrNzizCdMJEp5zKR4XRSMj-pTdv0Us9VNWBasmYcsRRwLCrbr56qNZWBqSCMo1n9uuDVn2jwX3TJvflVYJ5eFy_AeuSRsYP4IZpVfIgQa_M_jpxzqEUcOyymM_iHc8lqsaOMkCXyzUnvQHwgy4EzHxKFkCoCHHa5jVAf9Gnol0mf4Yr2C8MosmAo4UiuPBgk6J_IX3DQcx-3NEMfUZdj7TOzoVG7H3Nuaid0CL4spvphW5d5l6r4qJCNk1rNi9tIb_xxQ/https%3A%2F%2Fdrive.google.com%2Ffile%2Fd%2F150V0yIx6T1oSiCwiFmFiKU9rbNk1BfhD%2Fview%3Fusp%3Dsharing>

Thank you very much again for your help!
Rachel

From: 
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>

mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
 on behalf of Fischl, Bruce 
mailto:bfis...@mgh.harvard.edu>>
Sent: Sunday, July 3, 2022 6:37:42 PM
To: Freesurfer support list 
mailto:freesurfer@nmr.mgh.harvard.edu>>
Subject: Re: [Freesurfer] How to project SPM image

Can you give us more details? How did you create the 
rReslice_Combined_roi_meanRD.nii? What resolution is it? And how are you trying 
to display it? On an average surface? Why are you mapping it to bert and not 
fsaverage?

From: 
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>

mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
 On Behalf Of Rachel Wagner
Sent: Sunday, July 3, 2022 6:26 PM
To: Freesurfer support list 
mailto:freesurfer@nmr.mgh.harvard.edu>>
Subject: Re: [Freesurfer] How to project SPM image

External Email - Use Caution

Hello Dr. Fischl, thank you for your reply, it is much appreciated.

I am trying to cortically project my spm lesion location/frequency map, 
according to instructions linked here: AnalyzingData/MNE_SPM2Freesurfer - Meg 
Wiki 
(cam.ac.uk)<https://secure-web.cisco.com/1Qq-eLDAcZvkiA1oj8V5IkWowioqEfn5og-amJx-SY4k1in27LFW-IYPjtKPBkz1pSyyypTf849rJVAmyJ-Xzl8hgSfRw_PnCU1IcK9vgJzylh5b5zbo__pkcMlQw3COQCtiD9Sjb3UUrTitRCZHp7K2aER3VxlzHcdNjLpvYNT25_gZPm3q08d1C6zm3oJAaOEzRs2pM7XWXRyfFr4kIvENC6HRC5Rym2tl9beh-v6o3WhIxUvTxUqG9UKik41wBeLCBHAlxXgQSjetU13wcX3LQV4OqWruZLoxxbjFjgttUeagi7QRPA8pJi6cegsKrkFGhnEdEFvpjRnL8d5vHBg/https%3A%2F%2Fimaging.mrc-cbu.cam.ac.uk%2Fmeg%2FAnalyzingData%2FMNE_SPM2Freesurfer>

I have used the following code: bbregister --mov 
rReslice_Combined_roi_meanRD.nii --bold \ --s bert \ --init-rr --lta 
register.lta

However, my results still look very grainy. Is there a better way to do this?

Thank you again,

Rachel Wagner

From: Fischl, Bruce<mailto:bfis...@mgh.harvard.edu>
Sent: June 30, 2022 9:09 PM
To: Freesurfer support list<mailto:freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] How to project SPM image

Can you summarize what you are trying to do? What kind of overlay are you 
trying to visualize and what exactly do you mean by a "3D image"?

From: 
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>

mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
 On Behalf Of Rachel Wagner
Sent: Thursday, June 30, 2022 2:48 PM
To: Freesurfer support list 
mailto:freesurfer@nmr.mgh.harvard.edu>>
Subject: Re: [Freesurfer] How to project SPM ima

Re: [Freesurfer] How to project SPM image

2022-07-03 Thread Rachel Wagner

External Email - Use Caution

Hi Dr. Fischl,

My apologies, I don’t have much of a background in software generally!

For the SPM image, I used the AAL atlas to label lesioned brain regions and 
colored by frequency to generate the heatmap. Image dimensions: 1x1x1, Image 
Size [91 109 91], Pixel Dimensions [2 2 2], Bits Per Pixel: 32. I will map onto 
fsaverage!

I’m hoping to display it as a heatmap on an average surface, to look something 
like this: | Decreased functional connectivity from Wernicke's area homologue 
in... | Download Scientific Diagram 
(researchgate.net)<https://secure-web.cisco.com/1oOMXS4Xcve-ZJ8PxylSUuZevRGR5aotHueMxgJxcMGkXSkjJ6wTsTr4oavOgdzgC__DuhBfa2YoeXPPAkWNDkDveceWCqonnMePOe7RO8-EzKOCNiY55G6RP0RxIqcSzGoy5xrThG11tzNHAx4J2oOvo_ESpDm-Xy5SRds7mHaMi14AVwz97DtG6A7__AhYWMzxD1DhY1be4RuervQ_3GhIJP9U47Jlyf-6BJDot29n-DzmhaePM1AHaWepGK-h2DLlNNr5gjpR4VuJMYqBEkqYBtAH7eWX7f2lcu_279ka4M5ClsgZa3q8hqXJMfnAB0nP3mVb7RfWqryW2ibpstA/https%3A%2F%2Fwww.researchgate.net%2Ffigure%2FDecreased-functional-connectivity-from-Wernickes-area-homologue-in-children-born-VPT_fig3_329809185>

This is a screenshot of what I currently have within FreeSurfer: 
https://secure-web.cisco.com/117ePUqDOWTzA8pswn-Mibsr2qBEZIMKV-Yd9P886w1Gz_L53sraXddp6xh_K6otFd1qp6tl3kHUNUk5TqYrNzizCdMJEp5zKR4XRSMj-pTdv0Us9VNWBasmYcsRRwLCrbr56qNZWBqSCMo1n9uuDVn2jwX3TJvflVYJ5eFy_AeuSRsYP4IZpVfIgQa_M_jpxzqEUcOyymM_iHc8lqsaOMkCXyzUnvQHwgy4EzHxKFkCoCHHa5jVAf9Gnol0mf4Yr2C8MosmAo4UiuPBgk6J_IX3DQcx-3NEMfUZdj7TOzoVG7H3Nuaid0CL4spvphW5d5l6r4qJCNk1rNi9tIb_xxQ/https%3A%2F%2Fdrive.google.com%2Ffile%2Fd%2F150V0yIx6T1oSiCwiFmFiKU9rbNk1BfhD%2Fview%3Fusp%3Dsharing

Thank you very much again for your help!
Rachel


From: freesurfer-boun...@nmr.mgh.harvard.edu 
 on behalf of Fischl, Bruce 

Sent: Sunday, July 3, 2022 6:37:42 PM
To: Freesurfer support list 
Subject: Re: [Freesurfer] How to project SPM image


Can you give us more details? How did you create the 
rReslice_Combined_roi_meanRD.nii? What resolution is it? And how are you trying 
to display it? On an average surface? Why are you mapping it to bert and not 
fsaverage?



From: freesurfer-boun...@nmr.mgh.harvard.edu 
 On Behalf Of Rachel Wagner
Sent: Sunday, July 3, 2022 6:26 PM
To: Freesurfer support list 
Subject: Re: [Freesurfer] How to project SPM image



External Email - Use Caution

Hello Dr. Fischl, thank you for your reply, it is much appreciated.



I am trying to cortically project my spm lesion location/frequency map, 
according to instructions linked here: AnalyzingData/MNE_SPM2Freesurfer - Meg 
Wiki 
(cam.ac.uk)<https://secure-web.cisco.com/1Qq-eLDAcZvkiA1oj8V5IkWowioqEfn5og-amJx-SY4k1in27LFW-IYPjtKPBkz1pSyyypTf849rJVAmyJ-Xzl8hgSfRw_PnCU1IcK9vgJzylh5b5zbo__pkcMlQw3COQCtiD9Sjb3UUrTitRCZHp7K2aER3VxlzHcdNjLpvYNT25_gZPm3q08d1C6zm3oJAaOEzRs2pM7XWXRyfFr4kIvENC6HRC5Rym2tl9beh-v6o3WhIxUvTxUqG9UKik41wBeLCBHAlxXgQSjetU13wcX3LQV4OqWruZLoxxbjFjgttUeagi7QRPA8pJi6cegsKrkFGhnEdEFvpjRnL8d5vHBg/https%3A%2F%2Fimaging.mrc-cbu.cam.ac.uk%2Fmeg%2FAnalyzingData%2FMNE_SPM2Freesurfer>



I have used the following code: bbregister --mov 
rReslice_Combined_roi_meanRD.nii --bold \ --s bert \ --init-rr --lta 
register.lta



However, my results still look very grainy. Is there a better way to do this?



Thank you again,

Rachel Wagner









From: Fischl, Bruce<mailto:bfis...@mgh.harvard.edu>
Sent: June 30, 2022 9:09 PM
To: Freesurfer support list<mailto:freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] How to project SPM image



Can you summarize what you are trying to do? What kind of overlay are you 
trying to visualize and what exactly do you mean by a “3D image”?



From: 
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>
 
mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
 On Behalf Of Rachel Wagner
Sent: Thursday, June 30, 2022 2:48 PM
To: Freesurfer support list 
mailto:freesurfer@nmr.mgh.harvard.edu>>
Subject: Re: [Freesurfer] How to project SPM image



External Email - Use Caution

Thank you so much for your response – I’m a master’s student and am really 
struggling - I’ve been stuck trying to do this for about 2 weeks now, so the 
help is so appreciated!



My results look very grainy in mricron so my supervisor wants me to keep trying 
in FreeSurfer unfortunately for me.



I uploaded a the brain.mgz volume in freeview, but I’m not sure how to add an 
overlay and project as a 3D image. Would you happen to have any ideas?



Thank you so, so much again,

Rachel Wagner



From: niels.f...@gmx.de<mailto:niels.f...@gmx.de>
Sent: June 30, 2022 2:35 PM
To: 'Freesurfer support list'<mailto:freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] How to project SPM image



You don't often get email from niels.f...@gmx.de<mailto:niels.f...@gmx.de>. 
Learn why this is 
important<https://secure-web.cisco

Re: [Freesurfer] How to project SPM image

2022-07-03 Thread Fischl, Bruce

Can you give us more details? How did you create the 
rReslice_Combined_roi_meanRD.nii? What resolution is it? And how are you trying 
to display it? On an average surface? Why are you mapping it to bert and not 
fsaverage?

From: freesurfer-boun...@nmr.mgh.harvard.edu 
 On Behalf Of Rachel Wagner
Sent: Sunday, July 3, 2022 6:26 PM
To: Freesurfer support list 
Subject: Re: [Freesurfer] How to project SPM image

External Email - Use Caution
Hello Dr. Fischl, thank you for your reply, it is much appreciated.

I am trying to cortically project my spm lesion location/frequency map, 
according to instructions linked here: AnalyzingData/MNE_SPM2Freesurfer - Meg 
Wiki 
(cam.ac.uk)<https://secure-web.cisco.com/1Qq-eLDAcZvkiA1oj8V5IkWowioqEfn5og-amJx-SY4k1in27LFW-IYPjtKPBkz1pSyyypTf849rJVAmyJ-Xzl8hgSfRw_PnCU1IcK9vgJzylh5b5zbo__pkcMlQw3COQCtiD9Sjb3UUrTitRCZHp7K2aER3VxlzHcdNjLpvYNT25_gZPm3q08d1C6zm3oJAaOEzRs2pM7XWXRyfFr4kIvENC6HRC5Rym2tl9beh-v6o3WhIxUvTxUqG9UKik41wBeLCBHAlxXgQSjetU13wcX3LQV4OqWruZLoxxbjFjgttUeagi7QRPA8pJi6cegsKrkFGhnEdEFvpjRnL8d5vHBg/https%3A%2F%2Fimaging.mrc-cbu.cam.ac.uk%2Fmeg%2FAnalyzingData%2FMNE_SPM2Freesurfer>

I have used the following code: bbregister --mov 
rReslice_Combined_roi_meanRD.nii --bold \ --s bert \ --init-rr --lta 
register.lta

However, my results still look very grainy. Is there a better way to do this?

Thank you again,
Rachel Wagner

From: Fischl, Bruce<mailto:bfis...@mgh.harvard.edu>
Sent: June 30, 2022 9:09 PM
To: Freesurfer support list<mailto:freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] How to project SPM image

Can you summarize what you are trying to do? What kind of overlay are you 
trying to visualize and what exactly do you mean by a "3D image"?

From: 
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>

mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
 On Behalf Of Rachel Wagner
Sent: Thursday, June 30, 2022 2:48 PM
To: Freesurfer support list 
mailto:freesurfer@nmr.mgh.harvard.edu>>
Subject: Re: [Freesurfer] How to project SPM image

External Email - Use Caution
Thank you so much for your response - I'm a master's student and am really 
struggling - I've been stuck trying to do this for about 2 weeks now, so the 
help is so appreciated!

My results look very grainy in mricron so my supervisor wants me to keep trying 
in FreeSurfer unfortunately for me.

I uploaded a the brain.mgz volume in freeview, but I'm not sure how to add an 
overlay and project as a 3D image. Would you happen to have any ideas?

Thank you so, so much again,
Rachel Wagner

From: niels.f...@gmx.de<mailto:niels.f...@gmx.de>
Sent: June 30, 2022 2:35 PM
To: 'Freesurfer support list'<mailto:freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] How to project SPM image

You don't often get email from niels.f...@gmx.de<mailto:niels.f...@gmx.de>. 
Learn why this is 
important<https://secure-web.cisco.com/1IGyjHfcGxatghbnnU4QrmkjiCFhtGpKgDShLha5LYdEXD8WHfidRqqVti-tRNc_NRrmceKvWCQqvppztwIyjyHoLtCRG8g-_oV0axWfVJBREqBDdqXiWbD3r4lqXwu1ATUnSHzr1Sm0hzwo9fZKMmaip9vMaZ-ziZtyq-o7jLLqcFSCJKMqj--KkVlWH1krwZu6xMc3iky_sPV5EDDuis16g4Bsx9Gtgx_ok2cbVmfCOgmv9kF1iV6S_H9cshZy0_0U2pGRX1vhHUDPzaaKSiDD2oKm3dVcgmx1rmzjlgOP78SWxfDc_SlHhotPQ8vOpc-kxEyf5XH9hCJY2HviLIg/https%3A%2F%2Faka.ms%2FLearnAboutSenderIdentification>
Sure is, through freeview, however if you already have spm format files, it is 
much easier to use mricron

Von: 
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>

mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
 Im Auftrag von Rachel Wagner
Gesendet: Donnerstag, 30. Juni 2022 18:18
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mailto:freesurfer@nmr.mgh.harvard.edu>>
Betreff: Re: [Freesurfer] How to project SPM image

External Email - Use Caution
Thanks very much, I will absolutely do so! Just so I know - is there not any 
way of generating such figures in Freesurfer?

From: niels.f...@gmx.de<mailto:niels.f...@gmx.de>
Sent: June 30, 2022 4:47 AM
To: Freesurfer support list<mailto:freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] How to project SPM image

You don't often get email from niels.f...@gmx.de<mailto:niels.f...@gmx.de>. 
Learn why this is 
important<https://secure-web.cisco.com/1i1UJeVjwlumrCAM-yAFlTcIKRz-AyoK3nEvXbthMrwntcUHURlFyX0rrFR0wouQHmspA4ZjoxOBIENpbDQzxXHDKpH2XTzH9AVcV2-B4cB0UnhepvutfJUWDgE0-b-jVluP0RVxcQb-6AbvjsVgjiH9THZp_5rNkZbCuvXkXkry7ESkyYXR4FggRrHhNYLoaEY5HgYqZwH5KsROiIvUMmu53rbttVpblAHaQUYBctJJR9xT50C6dDBPznLTYAWAisLm9sL6xcef1unrvAi6o59VwqbVaOLCnJmSHsjZ0sV9dPYEKoTc4lyh75EVhpn0SIbo5FCH1IrROZqKSf0rP1g/https%3A%2F%2Faka.ms%2FLearnAboutSenderIdentification>

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Rachel,  these figures were likely created with a software called mricron, not 
freesurfer.  Check it out :)

Holen Sie sich Outlook für 
Android<https://secure-web.cisco.com

Re: [Freesurfer] How to project SPM image

2022-07-03 Thread Rachel Wagner

External Email - Use Caution

Hello Dr. Fischl, thank you for your reply, it is much appreciated.

I am trying to cortically project my spm lesion location/frequency map, 
according to instructions linked here: AnalyzingData/MNE_SPM2Freesurfer - Meg 
Wiki 
(cam.ac.uk)<https://secure-web.cisco.com/1Qq-eLDAcZvkiA1oj8V5IkWowioqEfn5og-amJx-SY4k1in27LFW-IYPjtKPBkz1pSyyypTf849rJVAmyJ-Xzl8hgSfRw_PnCU1IcK9vgJzylh5b5zbo__pkcMlQw3COQCtiD9Sjb3UUrTitRCZHp7K2aER3VxlzHcdNjLpvYNT25_gZPm3q08d1C6zm3oJAaOEzRs2pM7XWXRyfFr4kIvENC6HRC5Rym2tl9beh-v6o3WhIxUvTxUqG9UKik41wBeLCBHAlxXgQSjetU13wcX3LQV4OqWruZLoxxbjFjgttUeagi7QRPA8pJi6cegsKrkFGhnEdEFvpjRnL8d5vHBg/https%3A%2F%2Fimaging.mrc-cbu.cam.ac.uk%2Fmeg%2FAnalyzingData%2FMNE_SPM2Freesurfer>

I have used the following code: bbregister --mov 
rReslice_Combined_roi_meanRD.nii --bold \ --s bert \ --init-rr --lta 
register.lta

However, my results still look very grainy. Is there a better way to do this?

Thank you again,
Rachel Wagner




From: Fischl, Bruce<mailto:bfis...@mgh.harvard.edu>
Sent: June 30, 2022 9:09 PM
To: Freesurfer support list<mailto:freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] How to project SPM image

Can you summarize what you are trying to do? What kind of overlay are you 
trying to visualize and what exactly do you mean by a “3D image”?

From: freesurfer-boun...@nmr.mgh.harvard.edu 
 On Behalf Of Rachel Wagner
Sent: Thursday, June 30, 2022 2:48 PM
To: Freesurfer support list 
Subject: Re: [Freesurfer] How to project SPM image


External Email - Use Caution
Thank you so much for your response – I’m a master’s student and am really 
struggling - I’ve been stuck trying to do this for about 2 weeks now, so the 
help is so appreciated!

My results look very grainy in mricron so my supervisor wants me to keep trying 
in FreeSurfer unfortunately for me.

I uploaded a the brain.mgz volume in freeview, but I’m not sure how to add an 
overlay and project as a 3D image. Would you happen to have any ideas?

Thank you so, so much again,
Rachel Wagner

From: niels.f...@gmx.de<mailto:niels.f...@gmx.de>
Sent: June 30, 2022 2:35 PM
To: 'Freesurfer support list'<mailto:freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] How to project SPM image

You don't often get email from niels.f...@gmx.de<mailto:niels.f...@gmx.de>. 
Learn why this is 
important<https://secure-web.cisco.com/1IGyjHfcGxatghbnnU4QrmkjiCFhtGpKgDShLha5LYdEXD8WHfidRqqVti-tRNc_NRrmceKvWCQqvppztwIyjyHoLtCRG8g-_oV0axWfVJBREqBDdqXiWbD3r4lqXwu1ATUnSHzr1Sm0hzwo9fZKMmaip9vMaZ-ziZtyq-o7jLLqcFSCJKMqj--KkVlWH1krwZu6xMc3iky_sPV5EDDuis16g4Bsx9Gtgx_ok2cbVmfCOgmv9kF1iV6S_H9cshZy0_0U2pGRX1vhHUDPzaaKSiDD2oKm3dVcgmx1rmzjlgOP78SWxfDc_SlHhotPQ8vOpc-kxEyf5XH9hCJY2HviLIg/https%3A%2F%2Faka.ms%2FLearnAboutSenderIdentification>
Sure is, through freeview, however if you already have spm format files, it is 
much easier to use mricron

Von: 
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>
 
mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
 Im Auftrag von Rachel Wagner
Gesendet: Donnerstag, 30. Juni 2022 18:18
An: Freesurfer support list 
mailto:freesurfer@nmr.mgh.harvard.edu>>
Betreff: Re: [Freesurfer] How to project SPM image


External Email - Use Caution
Thanks very much, I will absolutely do so! Just so I know – is there not any 
way of generating such figures in Freesurfer?

From: niels.f...@gmx.de<mailto:niels.f...@gmx.de>
Sent: June 30, 2022 4:47 AM
To: Freesurfer support list<mailto:freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] How to project SPM image

You don't often get email from niels.f...@gmx.de<mailto:niels.f...@gmx.de>. 
Learn why this is 
important<https://secure-web.cisco.com/1i1UJeVjwlumrCAM-yAFlTcIKRz-AyoK3nEvXbthMrwntcUHURlFyX0rrFR0wouQHmspA4ZjoxOBIENpbDQzxXHDKpH2XTzH9AVcV2-B4cB0UnhepvutfJUWDgE0-b-jVluP0RVxcQb-6AbvjsVgjiH9THZp_5rNkZbCuvXkXkry7ESkyYXR4FggRrHhNYLoaEY5HgYqZwH5KsROiIvUMmu53rbttVpblAHaQUYBctJJR9xT50C6dDBPznLTYAWAisLm9sL6xcef1unrvAi6o59VwqbVaOLCnJmSHsjZ0sV9dPYEKoTc4lyh75EVhpn0SIbo5FCH1IrROZqKSf0rP1g/https%3A%2F%2Faka.ms%2FLearnAboutSenderIdentification>

External Email - Use Caution
Rachel,  these figures were likely created with a software called mricron, not 
freesurfer.  Check it out :)

Holen Sie sich Outlook für 
Android<https://secure-web.cisco.com/1XvY3sA4-dRCvGWfgKiNWJHfOTGrrzAnDZB_-8JrFkF7ZCfI9UW5jD-mM3a0HD6u6u-XOhrGWWBIWdw7cY7iSa6VTZTpj5EPSIccAc83wMVuyE_Chh-Y41UAN1BN5hQgeEgwVxgy85ZFxD7a8RVjtO8x6YqLzn7R9EMm2j7-fuhi78CfCs8nGC2FCMTkxO59TfxCqAzZqBqbxZZYQSG8lgqX6_TrMa4UUKSK6XvwvVg2tbqUcsVxSl7jUvScAgBwcwlyfhyTurS387OW-PVJF9KA3zrYsboQDmxhlaGQRAaebLvS6Y_IpKv4NbRNQeNiKP1WYwTYcY_qpo0Wyl9Kxkw/https%3A%2F%2Faka.ms%2FAAb9ysg>



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The information in this e-

Re: [Freesurfer] How to project SPM image

2022-06-30 Thread Fischl, Bruce

Can you summarize what you are trying to do? What kind of overlay are you 
trying to visualize and what exactly do you mean by a "3D image"?

From: freesurfer-boun...@nmr.mgh.harvard.edu 
 On Behalf Of Rachel Wagner
Sent: Thursday, June 30, 2022 2:48 PM
To: Freesurfer support list 
Subject: Re: [Freesurfer] How to project SPM image

External Email - Use Caution
Thank you so much for your response - I'm a master's student and am really 
struggling - I've been stuck trying to do this for about 2 weeks now, so the 
help is so appreciated!

My results look very grainy in mricron so my supervisor wants me to keep trying 
in FreeSurfer unfortunately for me.

I uploaded a the brain.mgz volume in freeview, but I'm not sure how to add an 
overlay and project as a 3D image. Would you happen to have any ideas?

Thank you so, so much again,
Rachel Wagner

From: niels.f...@gmx.de<mailto:niels.f...@gmx.de>
Sent: June 30, 2022 2:35 PM
To: 'Freesurfer support list'<mailto:freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] How to project SPM image

You don't often get email from niels.f...@gmx.de<mailto:niels.f...@gmx.de>. 
Learn why this is 
important<https://secure-web.cisco.com/1IGyjHfcGxatghbnnU4QrmkjiCFhtGpKgDShLha5LYdEXD8WHfidRqqVti-tRNc_NRrmceKvWCQqvppztwIyjyHoLtCRG8g-_oV0axWfVJBREqBDdqXiWbD3r4lqXwu1ATUnSHzr1Sm0hzwo9fZKMmaip9vMaZ-ziZtyq-o7jLLqcFSCJKMqj--KkVlWH1krwZu6xMc3iky_sPV5EDDuis16g4Bsx9Gtgx_ok2cbVmfCOgmv9kF1iV6S_H9cshZy0_0U2pGRX1vhHUDPzaaKSiDD2oKm3dVcgmx1rmzjlgOP78SWxfDc_SlHhotPQ8vOpc-kxEyf5XH9hCJY2HviLIg/https%3A%2F%2Faka.ms%2FLearnAboutSenderIdentification>
Sure is, through freeview, however if you already have spm format files, it is 
much easier to use mricron

Von: 
freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-boun...@nmr.mgh.harvard.edu>

mailto:freesurfer-boun...@nmr.mgh.harvard.edu>>
 Im Auftrag von Rachel Wagner
Gesendet: Donnerstag, 30. Juni 2022 18:18
An: Freesurfer support list 
mailto:freesurfer@nmr.mgh.harvard.edu>>
Betreff: Re: [Freesurfer] How to project SPM image

External Email - Use Caution
Thanks very much, I will absolutely do so! Just so I know - is there not any 
way of generating such figures in Freesurfer?

From: niels.f...@gmx.de<mailto:niels.f...@gmx.de>
Sent: June 30, 2022 4:47 AM
To: Freesurfer support list<mailto:freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] How to project SPM image

You don't often get email from niels.f...@gmx.de<mailto:niels.f...@gmx.de>. 
Learn why this is 
important<https://secure-web.cisco.com/1i1UJeVjwlumrCAM-yAFlTcIKRz-AyoK3nEvXbthMrwntcUHURlFyX0rrFR0wouQHmspA4ZjoxOBIENpbDQzxXHDKpH2XTzH9AVcV2-B4cB0UnhepvutfJUWDgE0-b-jVluP0RVxcQb-6AbvjsVgjiH9THZp_5rNkZbCuvXkXkry7ESkyYXR4FggRrHhNYLoaEY5HgYqZwH5KsROiIvUMmu53rbttVpblAHaQUYBctJJR9xT50C6dDBPznLTYAWAisLm9sL6xcef1unrvAi6o59VwqbVaOLCnJmSHsjZ0sV9dPYEKoTc4lyh75EVhpn0SIbo5FCH1IrROZqKSf0rP1g/https%3A%2F%2Faka.ms%2FLearnAboutSenderIdentification>

External Email - Use Caution
Rachel,  these figures were likely created with a software called mricron, not 
freesurfer.  Check it out :)

Holen Sie sich Outlook für 
Android<https://secure-web.cisco.com/1XvY3sA4-dRCvGWfgKiNWJHfOTGrrzAnDZB_-8JrFkF7ZCfI9UW5jD-mM3a0HD6u6u-XOhrGWWBIWdw7cY7iSa6VTZTpj5EPSIccAc83wMVuyE_Chh-Y41UAN1BN5hQgeEgwVxgy85ZFxD7a8RVjtO8x6YqLzn7R9EMm2j7-fuhi78CfCs8nGC2FCMTkxO59TfxCqAzZqBqbxZZYQSG8lgqX6_TrMa4UUKSK6XvwvVg2tbqUcsVxSl7jUvScAgBwcwlyfhyTurS387OW-PVJF9KA3zrYsboQDmxhlaGQRAaebLvS6Y_IpKv4NbRNQeNiKP1WYwTYcY_qpo0Wyl9Kxkw/https%3A%2F%2Faka.ms%2FAAb9ysg>

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Re: [Freesurfer] How to project SPM image

2022-06-30 Thread Rachel Wagner

External Email - Use Caution

Thank you so much for your response – I’m a master’s student and am really 
struggling - I’ve been stuck trying to do this for about 2 weeks now, so the 
help is so appreciated!

My results look very grainy in mricron so my supervisor wants me to keep trying 
in FreeSurfer unfortunately for me.

I uploaded a the brain.mgz volume in freeview, but I’m not sure how to add an 
overlay and project as a 3D image. Would you happen to have any ideas?

Thank you so, so much again,
Rachel Wagner

From: niels.f...@gmx.de<mailto:niels.f...@gmx.de>
Sent: June 30, 2022 2:35 PM
To: 'Freesurfer support list'<mailto:freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] How to project SPM image

You don't often get email from niels.f...@gmx.de. Learn why this is 
important<https://secure-web.cisco.com/1IGyjHfcGxatghbnnU4QrmkjiCFhtGpKgDShLha5LYdEXD8WHfidRqqVti-tRNc_NRrmceKvWCQqvppztwIyjyHoLtCRG8g-_oV0axWfVJBREqBDdqXiWbD3r4lqXwu1ATUnSHzr1Sm0hzwo9fZKMmaip9vMaZ-ziZtyq-o7jLLqcFSCJKMqj--KkVlWH1krwZu6xMc3iky_sPV5EDDuis16g4Bsx9Gtgx_ok2cbVmfCOgmv9kF1iV6S_H9cshZy0_0U2pGRX1vhHUDPzaaKSiDD2oKm3dVcgmx1rmzjlgOP78SWxfDc_SlHhotPQ8vOpc-kxEyf5XH9hCJY2HviLIg/https%3A%2F%2Faka.ms%2FLearnAboutSenderIdentification>
Sure is, through freeview, however if you already have spm format files, it is 
much easier to use mricron

Von: freesurfer-boun...@nmr.mgh.harvard.edu 
 Im Auftrag von Rachel Wagner
Gesendet: Donnerstag, 30. Juni 2022 18:18
An: Freesurfer support list 
Betreff: Re: [Freesurfer] How to project SPM image


External Email - Use Caution
Thanks very much, I will absolutely do so! Just so I know – is there not any 
way of generating such figures in Freesurfer?

From: niels.f...@gmx.de<mailto:niels.f...@gmx.de>
Sent: June 30, 2022 4:47 AM
To: Freesurfer support list<mailto:freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] How to project SPM image

You don't often get email from niels.f...@gmx.de<mailto:niels.f...@gmx.de>. 
Learn why this is 
important<https://secure-web.cisco.com/1i1UJeVjwlumrCAM-yAFlTcIKRz-AyoK3nEvXbthMrwntcUHURlFyX0rrFR0wouQHmspA4ZjoxOBIENpbDQzxXHDKpH2XTzH9AVcV2-B4cB0UnhepvutfJUWDgE0-b-jVluP0RVxcQb-6AbvjsVgjiH9THZp_5rNkZbCuvXkXkry7ESkyYXR4FggRrHhNYLoaEY5HgYqZwH5KsROiIvUMmu53rbttVpblAHaQUYBctJJR9xT50C6dDBPznLTYAWAisLm9sL6xcef1unrvAi6o59VwqbVaOLCnJmSHsjZ0sV9dPYEKoTc4lyh75EVhpn0SIbo5FCH1IrROZqKSf0rP1g/https%3A%2F%2Faka.ms%2FLearnAboutSenderIdentification>

External Email - Use Caution
Rachel,  these figures were likely created with a software called mricron, not 
freesurfer.  Check it out :)

Holen Sie sich Outlook für 
Android<https://secure-web.cisco.com/1XvY3sA4-dRCvGWfgKiNWJHfOTGrrzAnDZB_-8JrFkF7ZCfI9UW5jD-mM3a0HD6u6u-XOhrGWWBIWdw7cY7iSa6VTZTpj5EPSIccAc83wMVuyE_Chh-Y41UAN1BN5hQgeEgwVxgy85ZFxD7a8RVjtO8x6YqLzn7R9EMm2j7-fuhi78CfCs8nGC2FCMTkxO59TfxCqAzZqBqbxZZYQSG8lgqX6_TrMa4UUKSK6XvwvVg2tbqUcsVxSl7jUvScAgBwcwlyfhyTurS387OW-PVJF9KA3zrYsboQDmxhlaGQRAaebLvS6Y_IpKv4NbRNQeNiKP1WYwTYcY_qpo0Wyl9Kxkw/https%3A%2F%2Faka.ms%2FAAb9ysg>


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Re: [Freesurfer] How to project SPM image

2022-06-30 Thread niels.foit

Sure is, through freeview, however if you already have spm format files, it
is much easier to use mricron

 

Von: freesurfer-boun...@nmr.mgh.harvard.edu
 Im Auftrag von Rachel Wagner
Gesendet: Donnerstag, 30. Juni 2022 18:18
An: Freesurfer support list 
Betreff: Re: [Freesurfer] How to project SPM image

 

External Email - Use Caution

Thanks very much, I will absolutely do so! Just so I know  is there not any
way of generating such figures in Freesurfer?

 

From: niels.f...@gmx.de <mailto:niels.f...@gmx.de> 
Sent: June 30, 2022 4:47 AM
To: Freesurfer support list <mailto:freesurfer@nmr.mgh.harvard.edu> 
Subject: Re: [Freesurfer] How to project SPM image

 


You don't often get email from niels.f...@gmx.de <mailto:niels.f...@gmx.de>
. Learn why this is important
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UHURlFyX0rrFR0wouQHmspA4ZjoxOBIENpbDQzxXHDKpH2XTzH9AVcV2-B4cB0UnhepvutfJUWDg
E0-b-jVluP0RVxcQb-6AbvjsVgjiH9THZp_5rNkZbCuvXkXkry7ESkyYXR4FggRrHhNYLoaEY5Hg
YqZwH5KsROiIvUMmu53rbttVpblAHaQUYBctJJR9xT50C6dDBPznLTYAWAisLm9sL6xcef1unrvA
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3A%2F%2Faka.ms%2FLearnAboutSenderIdentification> 



External Email - Use Caution

Rachel,  these figures were likely created with a software called mricron,
not freesurfer.  Check it out :) 

 

Holen Sie sich Outlook für Android
<https://secure-web.cisco.com/1XvY3sA4-dRCvGWfgKiNWJHfOTGrrzAnDZB_-8JrFkF7ZC
fI9UW5jD-mM3a0HD6u6u-XOhrGWWBIWdw7cY7iSa6VTZTpj5EPSIccAc83wMVuyE_Chh-Y41UAN1
BN5hQgeEgwVxgy85ZFxD7a8RVjtO8x6YqLzn7R9EMm2j7-fuhi78CfCs8nGC2FCMTkxO59TfxCqA
zZqBqbxZZYQSG8lgqX6_TrMa4UUKSK6XvwvVg2tbqUcsVxSl7jUvScAgBwcwlyfhyTurS387OW-P
VJF9KA3zrYsboQDmxhlaGQRAaebLvS6Y_IpKv4NbRNQeNiKP1WYwTYcY_qpo0Wyl9Kxkw/https%
3A%2F%2Faka.ms%2FAAb9ysg> 

 



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Re: [Freesurfer] How to project SPM image

2022-06-30 Thread Rachel Wagner

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Thanks very much, I will absolutely do so! Just so I know – is there not any 
way of generating such figures in Freesurfer?

From: niels.f...@gmx.de<mailto:niels.f...@gmx.de>
Sent: June 30, 2022 4:47 AM
To: Freesurfer support list<mailto:freesurfer@nmr.mgh.harvard.edu>
Subject: Re: [Freesurfer] How to project SPM image

You don't often get email from niels.f...@gmx.de. Learn why this is 
important<https://secure-web.cisco.com/1i1UJeVjwlumrCAM-yAFlTcIKRz-AyoK3nEvXbthMrwntcUHURlFyX0rrFR0wouQHmspA4ZjoxOBIENpbDQzxXHDKpH2XTzH9AVcV2-B4cB0UnhepvutfJUWDgE0-b-jVluP0RVxcQb-6AbvjsVgjiH9THZp_5rNkZbCuvXkXkry7ESkyYXR4FggRrHhNYLoaEY5HgYqZwH5KsROiIvUMmu53rbttVpblAHaQUYBctJJR9xT50C6dDBPznLTYAWAisLm9sL6xcef1unrvAi6o59VwqbVaOLCnJmSHsjZ0sV9dPYEKoTc4lyh75EVhpn0SIbo5FCH1IrROZqKSf0rP1g/https%3A%2F%2Faka.ms%2FLearnAboutSenderIdentification>

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Rachel,  these figures were likely created with a software called mricron, not 
freesurfer.  Check it out :)

Holen Sie sich Outlook für 
Android<https://secure-web.cisco.com/1XvY3sA4-dRCvGWfgKiNWJHfOTGrrzAnDZB_-8JrFkF7ZCfI9UW5jD-mM3a0HD6u6u-XOhrGWWBIWdw7cY7iSa6VTZTpj5EPSIccAc83wMVuyE_Chh-Y41UAN1BN5hQgeEgwVxgy85ZFxD7a8RVjtO8x6YqLzn7R9EMm2j7-fuhi78CfCs8nGC2FCMTkxO59TfxCqAzZqBqbxZZYQSG8lgqX6_TrMa4UUKSK6XvwvVg2tbqUcsVxSl7jUvScAgBwcwlyfhyTurS387OW-PVJF9KA3zrYsboQDmxhlaGQRAaebLvS6Y_IpKv4NbRNQeNiKP1WYwTYcY_qpo0Wyl9Kxkw/https%3A%2F%2Faka.ms%2FAAb9ysg>

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Re: [Freesurfer] How to project SPM image

2022-06-30 Thread niels.foit

External Email - Use CautionRachel,  these figures were likely created with a software called mricron, not freesurfer.  Check it out :)Holen Sie sich Outlook für Android
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The information in this e-mail is intended only for the person to whom it is 
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 .
Please note that this e-mail is not secure (encrypted).  If you do not wish to 
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continue to communicate over unencrypted e-mail.

Re: [Freesurfer] How to project SPM image

Re: [Freesurfer] How to project SPM image

Re: [Freesurfer] How to project SPM image

Re: [Freesurfer] How to project SPM image

Re: [Freesurfer] How to project SPM image

Re: [Freesurfer] How to project SPM image

Re: [Freesurfer] How to project SPM image

Re: [Freesurfer] How to project SPM image

Re: [Freesurfer] How to project SPM image

Re: [Freesurfer] How to project SPM image

Re: [Freesurfer] How to project SPM image

Re: [Freesurfer] How to project SPM image

Re: [Freesurfer] How to project SPM image

Re: [Freesurfer] How to project SPM image

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