Hi all,
We are hoping to visualize flat maps of surface data sampled to fsaverage6. Do 'flat.patch' files exist already for fsaverage6?
Thank you for any help,
Lauren DiNicola
sorry, no. You could create them fairly easily from fsaverage7, since the fsaverage6 is a subset of the vertices in 7. Just pick out the locations of the fsaverage6 vertices from the fsaverage7 flat map and write it out as a flat map (easy to do in matlab for example)
On Wed, 8 Aug 2018, Dinicola, Lauren wrote:
Hi all, We are hoping to visualize flat maps of surface data sampled to fsaverage6. Do 'flat.patch' files exist already for fsaverage6?
Thank you for any help,
Lauren DiNicola
Thank you so much for this response!
I appreciate the help.
Lauren
On Wed, Aug 8, 2018 at 3:04 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
sorry, no. You could create them fairly easily from fsaverage7, since the fsaverage6 is a subset of the vertices in 7. Just pick out the locations of the fsaverage6 vertices from the fsaverage7 flat map and write it out as a flat map (easy to do in matlab for example)
On Wed, 8 Aug 2018, Dinicola, Lauren wrote:
Hi all, We are hoping to visualize flat maps of surface data sampled to
fsaverage6. Do 'flat.patch' files
exist already for fsaverage6?
Thank you for any help,
Lauren DiNicola
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.
Hi Dr. Fischl,
Thank you so much for this response. This is a great idea, but I have not yet been successful with writing out the adjusted structure to a ?h.cortex.flat.patch file. Is there a specific command for writing a patch?
Thank you again,
Lauren
On Wed, Aug 8, 2018 at 3:04 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
sorry, no. You could create them fairly easily from fsaverage7, since the fsaverage6 is a subset of the vertices in 7. Just pick out the locations of the fsaverage6 vertices from the fsaverage7 flat map and write it out as a flat map (easy to do in matlab for example)
On Wed, 8 Aug 2018, Dinicola, Lauren wrote:
Hi all, We are hoping to visualize flat maps of surface data sampled to
fsaverage6. Do 'flat.patch' files
exist already for fsaverage6?
Thank you for any help,
Lauren DiNicola
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.
oh, maybe we never got around to writing a write_patch.m. We'll put one together and send it to you Bruce On Sun, 12 Aug 2018, Dinicola, Lauren wrote:
Hi Dr. Fischl, Thank you so much for this response. This is a great idea, but I have not yet been successful with writing out the adjusted structure to a ?h.cortex.flat.patch file. Is there a specific command for writing a patch?
Thank you again,
Lauren
On Wed, Aug 8, 2018 at 3:04 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote: sorry, no. You could create them fairly easily from fsaverage7, since the fsaverage6 is a subset of the vertices in 7. Just pick out the locations of the fsaverage6 vertices from the fsaverage7 flat map and write it out as a flat map (easy to do in matlab for example)
On Wed, 8 Aug 2018, Dinicola, Lauren wrote: > Hi all, > We are hoping to visualize flat maps of surface data sampled to fsaverage6. Do 'flat.patch' files > exist already for fsaverage6? > > Thank you for any help, > > Lauren DiNicola > >
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.
Thank you!
On Sun, Aug 12, 2018 at 6:49 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
oh, maybe we never got around to writing a write_patch.m. We'll put one together and send it to you Bruce
On Sun, 12 Aug 2018, Dinicola, Lauren wrote:
Hi Dr. Fischl,
Thank you so much for this response. This is a great idea, but I have not yet been successful with writing out the adjusted structure to a ?h.cortex.flat.patch file. Is there a specific command for writing a patch?
Thank you again,
Lauren
On Wed, Aug 8, 2018 at 3:04 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote: sorry, no. You could create them fairly easily from fsaverage7, since the fsaverage6 is a subset of the vertices in 7. Just pick out the locations of the fsaverage6 vertices from the fsaverage7 flat map and write it out as a flat map (easy to do in matlab for example)
On Wed, 8 Aug 2018, Dinicola, Lauren wrote: > Hi all, > We are hoping to visualize flat maps of surface data sampled tofsaverage6. Do 'flat.patch' files > exist already for fsaverage6? > > Thank you for any help, > > Lauren DiNicola > > _______________________________________________ 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 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.
Hi Lauren,
You can find the new write_patch.m function here - https://github.com/freesurfer/freesurfer/blob/dev/matlab/write_patch.m
You can install it with:
curl https://raw.githubusercontent.com/freesurfer/freesurfer/dev/matlab/write_pat... > write_patch.m cp write_patch.m ${FREESURFER_HOME}/matlab
best Andrew
From: freesurfer-bounces@nmr.mgh.harvard.edu on behalf of "Dinicola, Lauren" lmd600@g.harvard.edu Reply-To: FS Help freesurfer@nmr.mgh.harvard.edu Date: Monday, August 13, 2018 at 9:19 AM To: FS Help freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] fsaverage6 ?h.cortex.flat.patch files
Thank you!
On Sun, Aug 12, 2018 at 6:49 PM, Bruce Fischl <fischl@nmr.mgh.harvard.edumailto:fischl@nmr.mgh.harvard.edu> wrote: oh, maybe we never got around to writing a write_patch.m. We'll put one together and send it to you Bruce
On Sun, 12 Aug 2018, Dinicola, Lauren wrote: Hi Dr. Fischl, Thank you so much for this response. This is a great idea, but I have not yet been successful with writing out the adjusted structure to a ?h.cortex.flat.patch file. Is there a specific command for writing a patch?
Thank you again,
Lauren
On Wed, Aug 8, 2018 at 3:04 PM, Bruce Fischl <fischl@nmr.mgh.harvard.edumailto:fischl@nmr.mgh.harvard.edu> wrote: sorry, no. You could create them fairly easily from fsaverage7, since the fsaverage6 is a subset of the vertices in 7. Just pick out the locations of the fsaverage6 vertices from the fsaverage7 flat map and write it out as a flat map (easy to do in matlab for example)
On Wed, 8 Aug 2018, Dinicola, Lauren wrote:
> Hi all, > We are hoping to visualize flat maps of surface data sampled to fsaverage6. Do 'flat.patch' files > exist already for fsaverage6? > > Thank you for any help, > > Lauren DiNicola > > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edumailto: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 mailing list Freesurfer@nmr.mgh.harvard.edumailto: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.
Thank you very much for this!
On Fri, Sep 14, 2018 at 2:53 PM, Hoopes, Andrew AHOOPES@mgh.harvard.edu wrote:
Hi Lauren,
You can find the new write_patch.m function here - https://github.com/freesurfer/freesurfer/blob/dev/matlab/write_patch.m
You can install it with:
curl https://raw.githubusercontent.com/freesurfer/freesurfer/dev/ matlab/write_patch.m > write_patch.m
cp write_patch.m ${FREESURFER_HOME}/matlab
best
Andrew
*From: *freesurfer-bounces@nmr.mgh.harvard.edu on behalf of "Dinicola, Lauren" lmd600@g.harvard.edu *Reply-To: *FS Help freesurfer@nmr.mgh.harvard.edu *Date: *Monday, August 13, 2018 at 9:19 AM *To: *FS Help freesurfer@nmr.mgh.harvard.edu *Subject: *Re: [Freesurfer] fsaverage6 ?h.cortex.flat.patch files
Thank you!
On Sun, Aug 12, 2018 at 6:49 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote:
oh, maybe we never got around to writing a write_patch.m. We'll put one together and send it to you Bruce
On Sun, 12 Aug 2018, Dinicola, Lauren wrote:
Hi Dr. Fischl, Thank you so much for this response. This is a great idea, but I have not yet been successful with writing out the adjusted structure to a ?h.cortex.flat.patch file. Is there a specific command for writing a patch?
Thank you again,
Lauren
On Wed, Aug 8, 2018 at 3:04 PM, Bruce Fischl fischl@nmr.mgh.harvard.edu wrote: sorry, no. You could create them fairly easily from fsaverage7, since the fsaverage6 is a subset of the vertices in 7. Just pick out the locations of the fsaverage6 vertices from the fsaverage7 flat map and write it out as a flat map (easy to do in matlab for example)
On Wed, 8 Aug 2018, Dinicola, Lauren wrote: > Hi all, > We are hoping to visualize flat maps of surface data sampled tofsaverage6. Do 'flat.patch' files > exist already for fsaverage6? > > Thank you for any help, > > Lauren DiNicola > > _______________________________________________ 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 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@nmr.mgh.harvard.edu
-
Bruce Fischl -
Dinicola, Lauren -
Hoopes, Andrew