Dear FS list,
1. What does a label Thalamus Proper include? Is it the same as thalamus?
2. After correcting for multiple comparisons, I get a table of clusters. I have several questions regarding this table: What do the columns Max, CWPLow, and CWPHigh represent? Regarding the NVtxs column: is it the number of vertexes in cluster? What kind of information can I get from this value? If two clusters have different areas but the same number of vertexes, does it mean something?
Thank you very much for your help and for your time, Tanja.
I'm not sure about #1, maybe BF can chime in.
Tetiana Dadakova wrote:
Dear FS list,
What does a label Thalamus Proper include? Is it the same as thalamus?
After correcting for multiple comparisons, I get a table of
clusters. I have several questions regarding this table: What do the columns Max, CWPLow, and CWPHigh represent?
1. CWP - cluster-wise pvalue. The pvalue of the cluster corrected for multiple comparisons 2. CWPLow - lower 90% confidence limit of CWP based on binomial distribution 3. CWPHi - upper 90% confidence limit of CWP based on binomial distribution
Regarding the NVtxs column: is it the number of vertexes in cluster?
Yes
What kind of information can I get from this value?
It is not very informative so don't feel like you have to use it. It is good for assuring that the software is doing the right thing.
If two clusters have different areas but the same number of vertexes, does it mean something?
It means that the area of the component triangles that make up the vertices is different.
doug
Thank you very much for your help and for your time, Tanja. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Actually I have the same question - does the thalamus proper include LGN ?
----- Original Message ----- From: "Douglas N Greve" greve@nmr.mgh.harvard.edu To: "Tetiana Dadakova" tetiana.d@gmail.com Cc: freesurfer@nmr.mgh.harvard.edu Sent: Friday, September 2, 2011 12:28:45 PM Subject: Re: [Freesurfer] what is thalamus-proper and clusters-table related question
I'm not sure about #1, maybe BF can chime in.
Tetiana Dadakova wrote:
Dear FS list,
What does a label Thalamus Proper include? Is it the same as thalamus?
After correcting for multiple comparisons, I get a table of
clusters. I have several questions regarding this table: What do the columns Max, CWPLow, and CWPHigh represent?
1. CWP - cluster-wise pvalue. The pvalue of the cluster corrected for multiple comparisons 2. CWPLow - lower 90% confidence limit of CWP based on binomial distribution 3. CWPHi - upper 90% confidence limit of CWP based on binomial distribution
Regarding the NVtxs column: is it the number of vertexes in cluster?
Yes
What kind of information can I get from this value?
It is not very informative so don't feel like you have to use it. It is good for assuring that the software is doing the right thing.
If two clusters have different areas but the same number of vertexes, does it mean something?
It means that the area of the component triangles that make up the vertices is different.
doug
Thank you very much for your help and for your time, Tanja. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
I dint think it does, but maybe jean or David can confirm
On Sep 2, 2011, at 1:07 PM, Ritobrato Datta ridatta@mail.med.upenn.edu wrote:
Actually I have the same question - does the thalamus proper include LGN ?
----- Original Message ----- From: "Douglas N Greve" greve@nmr.mgh.harvard.edu To: "Tetiana Dadakova" tetiana.d@gmail.com Cc: freesurfer@nmr.mgh.harvard.edu Sent: Friday, September 2, 2011 12:28:45 PM Subject: Re: [Freesurfer] what is thalamus-proper and clusters-table related question
I'm not sure about #1, maybe BF can chime in.
Tetiana Dadakova wrote:
Dear FS list,
What does a label Thalamus Proper include? Is it the same as thalamus?
After correcting for multiple comparisons, I get a table of
clusters. I have several questions regarding this table: What do the columns Max, CWPLow, and CWPHigh represent?
- CWP - cluster-wise pvalue. The pvalue of the cluster corrected for multiple comparisons
- CWPLow - lower 90% confidence limit of CWP based on binomial
distribution 3. CWPHi - upper 90% confidence limit of CWP based on binomial distribution
Regarding the NVtxs column: is it the number of vertexes in cluster?
Yes
What kind of information can I get from this value?
It is not very informative so don't feel like you have to use it. It is good for assuring that the software is doing the right thing.
If two clusters have different areas but the same number of vertexes, does it mean something?
It means that the area of the component triangles that make up the vertices is different.
doug
Thank you very much for your help and for your time, Tanja. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html
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
I don't think it does. Jean manually labeled LGN in a few cases for me a few years ago, and I vaguely remember that LGN did not overlap with our thalamus seg (but I could be wrong). doug
Bruce Fischl wrote:
I dint think it does, but maybe jean or David can confirm
On Sep 2, 2011, at 1:07 PM, Ritobrato Datta ridatta@mail.med.upenn.edu wrote:
Actually I have the same question - does the thalamus proper include LGN ?
----- Original Message ----- From: "Douglas N Greve" greve@nmr.mgh.harvard.edu To: "Tetiana Dadakova" tetiana.d@gmail.com Cc: freesurfer@nmr.mgh.harvard.edu Sent: Friday, September 2, 2011 12:28:45 PM Subject: Re: [Freesurfer] what is thalamus-proper and clusters-table related question
I'm not sure about #1, maybe BF can chime in.
Tetiana Dadakova wrote:
Dear FS list,
What does a label Thalamus Proper include? Is it the same as thalamus?
After correcting for multiple comparisons, I get a table of
clusters. I have several questions regarding this table: What do the columns Max, CWPLow, and CWPHigh represent?
- CWP - cluster-wise pvalue. The pvalue of the cluster corrected for multiple comparisons
- CWPLow - lower 90% confidence limit of CWP based on binomial
distribution 3. CWPHi - upper 90% confidence limit of CWP based on binomial distribution
Regarding the NVtxs column: is it the number of vertexes in cluster?
Yes
What kind of information can I get from this value?
It is not very informative so don't feel like you have to use it. It is good for assuring that the software is doing the right thing.
If two clusters have different areas but the same number of vertexes, does it mean something?
It means that the area of the component triangles that make up the vertices is different.
doug
Thank you very much for your help and for your time, Tanja. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html
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
Yes, not sure why the CMA called it that
On Sep 2, 2011, at 12:28 PM, Douglas N Greve greve@nmr.mgh.harvard.edu wrote:
I'm not sure about #1, maybe BF can chime in.
Tetiana Dadakova wrote:
Dear FS list,
What does a label Thalamus Proper include? Is it the same as thalamus?
After correcting for multiple comparisons, I get a table of
clusters. I have several questions regarding this table: What do the columns Max, CWPLow, and CWPHigh represent?
- CWP - cluster-wise pvalue. The pvalue of the cluster corrected for multiple comparisons
- CWPLow - lower 90% confidence limit of CWP based on binomial
distribution 3. CWPHi - upper 90% confidence limit of CWP based on binomial distribution
Regarding the NVtxs column: is it the number of vertexes in cluster?
Yes
What kind of information can I get from this value?
It is not very informative so don't feel like you have to use it. It is good for assuring that the software is doing the right thing.
If two clusters have different areas but the same number of vertexes, does it mean something?
It means that the area of the component triangles that make up the vertices is different.
doug
Thank you very much for your help and for your time, Tanja. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Thank you Doug,
One more question: what does the column Max mean in the table with clusters' info?
Tanja.
On Fri, Sep 2, 2011 at 6:28 PM, Douglas N Greve greve@nmr.mgh.harvard.edu wrote:
I'm not sure about #1, maybe BF can chime in.
Tetiana Dadakova wrote:
Dear FS list,
What does a label Thalamus Proper include? Is it the same as thalamus?
After correcting for multiple comparisons, I get a table of
clusters. I have several questions regarding this table: What do the columns Max, CWPLow, and CWPHigh represent?
1. CWP - cluster-wise pvalue. The pvalue of the cluster corrected for multiple comparisons 2. CWPLow - lower 90% confidence limit of CWP based on binomial distribution 3. CWPHi - upper 90% confidence limit of CWP based on binomial distribution
Regarding the NVtxs column: is it the number of vertexes in cluster?
Yes
What kind of information can I get from this value?
It is not very informative so don't feel like you have to use it. It is good for assuring that the software is doing the right thing.
If two clusters have different areas but the same number of vertexes, does it mean something?
It means that the area of the component triangles that make up the vertices is different.
doug
Thank you very much for your help and for your time, Tanja. _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html
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 -
Douglas N Greve -
Ritobrato Datta -
Tetiana Dadakova