Hi Doug,
Is it possible to run retinotopy-like analysis to reveal areas in the brain responsible for a certain phase of a presented stimuli? Say, instead of presenting 0 - 360 degrees of rotating wedge per cycle, we would like to present arbitrary scale of 0 - 100 of a particular stimulus feature, that does not necessarily differ in their retinotopic locations.
We thought, if we pretend that scale-0 is equivalent to a wedge of 0 degree, and scale-50 is equivalent to a wedge of 180 degrees, and so on, we would be able to map the cortical area corresponding to each value of the scale. However, the retinotopy protocol of freesurfer requires the input of a stimulus type “e.g. polar or eccen” and direction “e.g. pos or neg”, so our analysis won’t work as we intend.
Running Freesurfer v5.3.0
Thank you
Walid
Hello all,
I would like to pose my question again in case it got missed.
Thank you.
WY
On Mon, Mar 19, 2018 at 3:47 PM, Walid Yassin walidyassin00@gmail.com wrote:
Hi Doug,
Is it possible to run retinotopy-like analysis to reveal areas in the brain responsible for a certain phase of a presented stimuli? Say, instead of presenting 0 - 360 degrees of rotating wedge per cycle, we would like to present arbitrary scale of 0 - 100 of a particular stimulus feature, that does not necessarily differ in their retinotopic locations.
We thought, if we pretend that scale-0 is equivalent to a wedge of 0 degree, and scale-50 is equivalent to a wedge of 180 degrees, and so on, we would be able to map the cortical area corresponding to each value of the scale. However, the retinotopy protocol of freesurfer requires the input of a stimulus type “e.g. polar or eccen” and direction “e.g. pos or neg”, so our analysis won’t work as we intend.
Running Freesurfer v5.3.0
Thank you
Walid
Sorry, yes you can use an A-B blocked paradigm. Run mkanalysis-sess -help to get more info
On 3/20/18 4:28 AM, Walid Yassin wrote:
Hello all,
I would like to pose my question again in case it got missed.
Thank you.
WY
On Mon, Mar 19, 2018 at 3:47 PM, Walid Yassin <walidyassin00@gmail.com mailto:walidyassin00@gmail.com> wrote:
Hi Doug, Is it possible to run retinotopy-like analysis to reveal areas in the brain responsible for a certain phase of a presented stimuli? Say, instead of presenting 0 - 360 degrees of rotating wedge per cycle, we would like to present arbitrary scale of 0 - 100 of a particular stimulus feature, that does not necessarily differ in their retinotopic locations. We thought, if we pretend that scale-0 is equivalent to a wedge of 0 degree, and scale-50 is equivalent to a wedge of 180 degrees, and so on, we would be able to map the cortical area corresponding to each value of the scale. However, the retinotopy protocol of freesurfer requires the input of a stimulus type “e.g. polar or eccen” and direction “e.g. pos or neg”, so our analysis won’t work as we intend. Running Freesurfer v5.3.0 Thank you Walid
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Hello Doug,
Thank you for your previous answer. I have another question in the mkanalysis. When I run mkanalysis is it possible to analyse only a part of my run? I mean if my stimuli was 100s per run, can i tell mkanalysis to ignore the first 20s and the last 30s and analyse the 50 in the middle?
Walid
On Mar 21, 2018, at 0:10, Douglas Greve dgreve@mgh.harvard.edu wrote:
Sorry, yes you can use an A-B blocked paradigm. Run mkanalysis-sess -help to get more info
On 3/20/18 4:28 AM, Walid Yassin wrote: Hello all,
I would like to pose my question again in case it got missed.
Thank you.
WY
On Mon, Mar 19, 2018 at 3:47 PM, Walid Yassin walidyassin00@gmail.com wrote: Hi Doug,
Is it possible to run retinotopy-like analysis to reveal areas in the brain responsible for a certain phase of a presented stimuli? Say, instead of presenting 0 - 360 degrees of rotating wedge per cycle, we would like to present arbitrary scale of 0 - 100 of a particular stimulus feature, that does not necessarily differ in their retinotopic locations.
We thought, if we pretend that scale-0 is equivalent to a wedge of 0 degree, and scale-50 is equivalent to a wedge of 180 degrees, and so on, we would be able to map the cortical area corresponding to each value of the scale. However, the retinotopy protocol of freesurfer requires the input of a stimulus type “e.g. polar or eccen” and direction “e.g. pos or neg”, so our analysis won’t work as we intend.
Running Freesurfer v5.3.0
Thank you
Walid
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.
You can do it with the tpexclude file. Do a search through the archives for docs on how to use it
On 04/09/2018 06:56 PM, Walid Yassin wrote:
Hello Doug,
Thank you for your previous answer. I have another question in the mkanalysis. When I run mkanalysis is it possible to analyse only a part of my run? I mean if my stimuli was 100s per run, can i tell mkanalysis to ignore the first 20s and the last 30s and analyse the 50 in the middle?
Walid
On Mar 21, 2018, at 0:10, Douglas Greve <dgreve@mgh.harvard.edu mailto:dgreve@mgh.harvard.edu> wrote:
Sorry, yes you can use an A-B blocked paradigm. Run mkanalysis-sess -help to get more info
On 3/20/18 4:28 AM, Walid Yassin wrote:
Hello all,
I would like to pose my question again in case it got missed.
Thank you.
WY
On Mon, Mar 19, 2018 at 3:47 PM, Walid Yassin <walidyassin00@gmail.com mailto:walidyassin00@gmail.com> wrote:
Hi Doug, Is it possible to run retinotopy-like analysis to reveal areas in the brain responsible for a certain phase of a presented stimuli? Say, instead of presenting 0 - 360 degrees of rotating wedge per cycle, we would like to present arbitrary scale of 0 - 100 of a particular stimulus feature, that does not necessarily differ in their retinotopic locations. We thought, if we pretend that scale-0 is equivalent to a wedge of 0 degree, and scale-50 is equivalent to a wedge of 180 degrees, and so on, we would be able to map the cortical area corresponding to each value of the scale. However, the retinotopy protocol of freesurfer requires the input of a stimulus type “e.g. polar or eccen” and direction “e.g. pos or neg”, so our analysis won’t work as we intend. Running Freesurfer v5.3.0 Thank you Walid
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 mailto: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
Thank you, i will!
Walid
On Apr 10, 2018, at 8:03 AM, Douglas N. Greve dgreve@mgh.harvard.edu wrote:
You can do it with the tpexclude file. Do a search through the archives for docs on how to use it
On 04/09/2018 06:56 PM, Walid Yassin wrote:
Hello Doug,
Thank you for your previous answer. I have another question in the mkanalysis. When I run mkanalysis is it possible to analyse only a part of my run? I mean if my stimuli was 100s per run, can i tell mkanalysis to ignore the first 20s and the last 30s and analyse the 50 in the middle?
Walid
On Mar 21, 2018, at 0:10, Douglas Greve <dgreve@mgh.harvard.edu mailto:dgreve@mgh.harvard.edu> wrote:
Sorry, yes you can use an A-B blocked paradigm. Run mkanalysis-sess -help to get more info
On 3/20/18 4:28 AM, Walid Yassin wrote:
Hello all,
I would like to pose my question again in case it got missed.
Thank you.
WY
On Mon, Mar 19, 2018 at 3:47 PM, Walid Yassin <walidyassin00@gmail.com mailto:walidyassin00@gmail.com> wrote:
Hi Doug,
Is it possible to run retinotopy-like analysis to reveal areas in the brain responsible for a certain phase of a presented stimuli? Say, instead of presenting 0 - 360 degrees of rotating wedge per cycle, we would like to present arbitrary scale of 0 - 100 of a particular stimulus feature, that does not necessarily differ in their retinotopic locations.
We thought, if we pretend that scale-0 is equivalent to a wedge of 0 degree, and scale-50 is equivalent to a wedge of 180 degrees, and so on, we would be able to map the cortical area corresponding to each value of the scale. However, the retinotopy protocol of freesurfer requires the input of a stimulus type “e.g. polar or eccen” and direction “e.g. pos or neg”, so our analysis won’t work as we intend.
Running Freesurfer v5.3.0
Thank you
Walid
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 mailto: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
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
freesurfer@nmr.mgh.harvard.edu
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Douglas Greve -
Douglas N. Greve
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Walid Yassin