I don't know anything about the Power atlas. For the HCP, if they have it in annotation format, then you can run mri_aparc2aseg to map it into the anatomical volume, then specify that volume when you run fcseed-config. To get the mri_aparc2aseg command line, look in the recon-all to find out how aparc+aseg.mgz is created

On 8/17/16 9:28 AM, Sabin Khadka wrote:

Hi Doug- Do you think it is possible to use these atlas? If so could you point me to steps that needed to be done.

Thanks for your help!

Cheers, Sabin Khadka

On Mon, Aug 15, 2016 at 10:39 AM, Douglas Greve <greve@nmr.mgh.harvard.edu mailto:greve@nmr.mgh.harvard.edu> wrote:

I have not used them myself.


On 8/15/16 10:23 AM, Sabin Khadka wrote:

...

HI all-

I am using FSFAST to extract ROI time series values for further
connectivity analysis. I've used Desikan, Destriuex and DKT atlas.

However, I was wondering if anyone has used Power et.al
<http://et.al> 2011 rois and/or HCP's newly defined 180/per hemi
rois to extract time series data. If so could you please advise
me on how do it (if they are at all possible).

Cheers,
Sabin Khadka


_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
<mailto:Freesurfer@nmr.mgh.harvard.edu>
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
<https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer>

_______________________________________________ Freesurfer mailing
list Freesurfer@nmr.mgh.harvard.edu
<mailto:Freesurfer@nmr.mgh.harvard.edu>
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
<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
<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

Hi Michael- Is there anyway I can get those Gordon parcellation annot files?

Cheers, Sabin Khadka

On Wed, Aug 17, 2016 at 10:59 AM, Harms, Michael mharms@wustl.edu wrote:

FYI: I supplied a version of the “Gordon” parcellation in .annot format to Bruce a while back. He had expressed an interest in possibly including it as part of FS 6.0.

cheers, -MH

-- Michael Harms, Ph.D.

---

Conte Center for the Neuroscience of Mental Disorders Washington University School of Medicine Department of Psychiatry, Box 8134 660 South Euclid Ave. Tel: 314-747-6173 St. Louis, MO 63110 Email: mharms@wustl.edu

From: freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Doug Greve < greve@nmr.mgh.harvard.edu> Reply-To: "freesurfer@nmr.mgh.harvard.edu" <freesurfer@nmr.mgh.harvard.edu

...

Date: Wednesday, August 17, 2016 at 9:55 AM To: "freesurfer@nmr.mgh.harvard.edu" freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] FSFAST ROI atlas

I don't know anything about the Power atlas. For the HCP, if they have it in annotation format, then you can run mri_aparc2aseg to map it into the anatomical volume, then specify that volume when you run fcseed-config. To get the mri_aparc2aseg command line, look in the recon-all to find out how aparc+aseg.mgz is created

On 8/17/16 9:28 AM, Sabin Khadka wrote:

Hi Doug- Do you think it is possible to use these atlas? If so could you point me to steps that needed to be done.

Thanks for your help!

Cheers, Sabin Khadka

On Mon, Aug 15, 2016 at 10:39 AM, Douglas Greve <greve@nmr.mgh.harvard.edu

...

wrote:

...

I have not used them myself.

On 8/15/16 10:23 AM, Sabin Khadka wrote:

HI all-

I am using FSFAST to extract ROI time series values for further connectivity analysis. I've used Desikan, Destriuex and DKT atlas.

However, I was wondering if anyone has used Power et.al 2011 rois and/or HCP's newly defined 180/per hemi rois to extract time series data. If so could you please advise me on how do it (if they are at all possible).

Cheers, Sabin Khadka

---

Freesurfer mailing listFreesurfer@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.e du/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 listFreesurfer@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

---

The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return 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 Michael- Thanks very much for the file. Is there published paper or other documents that I could use as reference for these annotation?

Cheers, Sabin Khadka

On Wed, Aug 17, 2016 at 12:53 PM, Harms, Michael mharms@wustl.edu wrote:

They are attached (assuming that the FS list allows small attachments). There is a script that details exactly how it was done.

-- Michael Harms, Ph.D.

---

Conte Center for the Neuroscience of Mental Disorders Washington University School of Medicine Department of Psychiatry, Box 8134 660 South Euclid Ave. Tel: 314-747-6173 St. Louis, MO 63110 Email: mharms@wustl.edu

From: Sabin Khadka mr.sabinkhadka@gmail.com Date: Wednesday, August 17, 2016 at 11:25 AM To: Freesurfer support list freesurfer@nmr.mgh.harvard.edu, "Harms, Michael" mharms@wustl.edu

Subject: Re: [Freesurfer] FSFAST ROI atlas

Hi Michael- Is there anyway I can get those Gordon parcellation annot files?

Cheers, Sabin Khadka

On Wed, Aug 17, 2016 at 10:59 AM, Harms, Michael mharms@wustl.edu wrote:

...

FYI: I supplied a version of the “Gordon” parcellation in .annot format to Bruce a while back. He had expressed an interest in possibly including it as part of FS 6.0.

cheers, -MH

-- Michael Harms, Ph.D.

---

Conte Center for the Neuroscience of Mental Disorders Washington University School of Medicine Department of Psychiatry, Box 8134 660 South Euclid Ave. Tel: 314-747-6173 St. Louis, MO 63110 Email: mharms@wustl.edu

From: freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Doug Greve < greve@nmr.mgh.harvard.edu> Reply-To: "freesurfer@nmr.mgh.harvard.edu" <freesurfer@nmr.mgh.harvard.ed u> Date: Wednesday, August 17, 2016 at 9:55 AM To: "freesurfer@nmr.mgh.harvard.edu" freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] FSFAST ROI atlas

I don't know anything about the Power atlas. For the HCP, if they have it in annotation format, then you can run mri_aparc2aseg to map it into the anatomical volume, then specify that volume when you run fcseed-config. To get the mri_aparc2aseg command line, look in the recon-all to find out how aparc+aseg.mgz is created

On 8/17/16 9:28 AM, Sabin Khadka wrote:

Hi Doug- Do you think it is possible to use these atlas? If so could you point me to steps that needed to be done.

Thanks for your help!

Cheers, Sabin Khadka

On Mon, Aug 15, 2016 at 10:39 AM, Douglas Greve < greve@nmr.mgh.harvard.edu> wrote:

...

I have not used them myself.

On 8/15/16 10:23 AM, Sabin Khadka wrote:

HI all-

I am using FSFAST to extract ROI time series values for further connectivity analysis. I've used Desikan, Destriuex and DKT atlas.

However, I was wondering if anyone has used Power et.al 2011 rois and/or HCP's newly defined 180/per hemi rois to extract time series data. If so could you please advise me on how do it (if they are at all possible).

Cheers, Sabin Khadka

---

Freesurfer mailing listFreesurfer@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.e du/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 listFreesurfer@nmr.mgh.harvard.eduhttps://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

---

The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return 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.

---

The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail.