Re: [Freesurfer] standard deviation map
Hi Michael, sorry, a bunch of us have been away in Barcelona with very slow network access. Did this question get answered? I think Doug has something to do this (as do I somewhere, but I'm sure Duog's is better :) cheers Bruce On Mon, 7 Jun 2010, Michael Scheel wrote: Dear FS experts, I have a anatomical scan of a subject with a rare neurogenetical disorder. I'd like to compare this with a age matched control group. How can I visualize a z-score transform map of the cortical thickness, i.e. how would I compute and vizualize the number/amount of standard deviations that my subjects differs from the mean of the control group at each vertex? Thanks, Michael ___ 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.
[Freesurfer] standard deviation map
Dear FS experts, I have a anatomical scan of a subject with a rare neurogenetical disorder. I'd like to compare this with a age matched control group. How can I visualize a z-score transform map of the cortical thickness, i.e. how would I compute and vizualize the number/amount of standard deviations that my subjects differs from the mean of the control group at each vertex? Thanks, Michael ___ 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] Standard deviation map
Hi there, How can I get a standard deviation map of the thickness measurements ina subject? Inês ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Re: [Freesurfer] Standard deviation map
what exactly do you mean? Spatial standard deviations? Usually those aren't terribly interesting, and it's the cross subject ones that are more useful, but that doesn't sound like what you mean. Bruce On Thu, 20 Sep 2007, Inês Souta wrote: Hi there, How can I get a standard deviation map of the thickness measurements ina subject? Inês ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Re: [Freesurfer] Standard deviation map
Well, I'm dealing with a patient with an heterogeneous lesion. Somehow, the lesion area seems to have misled the algorithm in terms of white and pial surface definition, leading to an erroneous cortical thickness measure in that area. What I was interested in analising (if possible) is the dispersion related to the thickness measures in that area. 2007/9/20, Bruce Fischl [EMAIL PROTECTED]: what exactly do you mean? Spatial standard deviations? Usually those aren't terribly interesting, and it's the cross subject ones that are more useful, but that doesn't sound like what you mean. Bruce On Thu, 20 Sep 2007, Inês Souta wrote: Hi there, How can I get a standard deviation map of the thickness measurements ina subject? Inês ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Re: [Freesurfer] Standard deviation map
if you draw a label outlining the region you can use mris_anatomical_stats -l label file to get the thickness standard deviations I think. Usually they aren't that interesting because the thickness varies with geometry (e.g. sulci are thinner than gyri). cheers, Bruce On Thu, 20 Sep 2007, Inês Souta wrote: Well, I'm dealing with a patient with an heterogeneous lesion. Somehow, the lesion area seems to have misled the algorithm in terms of white and pial surface definition, leading to an erroneous cortical thickness measure in that area. What I was interested in analising (if possible) is the dispersion related to the thickness measures in that area. 2007/9/20, Bruce Fischl [EMAIL PROTECTED]: what exactly do you mean? Spatial standard deviations? Usually those aren't terribly interesting, and it's the cross subject ones that are more useful, but that doesn't sound like what you mean. Bruce On Thu, 20 Sep 2007, Inês Souta wrote: Hi there, How can I get a standard deviation map of the thickness measurements ina subject? Inês ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Re: [Freesurfer] Standard deviation map
ok. That's good enough for me by now. Thanks a lot Inês 2007/9/20, Bruce Fischl [EMAIL PROTECTED]: if you draw a label outlining the region you can use mris_anatomical_stats -l label file to get the thickness standard deviations I think. Usually they aren't that interesting because the thickness varies with geometry (e.g. sulci are thinner than gyri). cheers, Bruce On Thu, 20 Sep 2007, Inês Souta wrote: Well, I'm dealing with a patient with an heterogeneous lesion. Somehow, the lesion area seems to have misled the algorithm in terms of white and pial surface definition, leading to an erroneous cortical thickness measure in that area. What I was interested in analising (if possible) is the dispersion related to the thickness measures in that area. 2007/9/20, Bruce Fischl [EMAIL PROTECTED]: what exactly do you mean? Spatial standard deviations? Usually those aren't terribly interesting, and it's the cross subject ones that are more useful, but that doesn't sound like what you mean. Bruce On Thu, 20 Sep 2007, Inês Souta wrote: Hi there, How can I get a standard deviation map of the thickness measurements ina subject? Inês ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
