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Dear Freesurfer experts,
In relation to the previous question, could I obtain a Z value of the significant cluster obtained by opening in freeview the z.mgh and place the cursor on the point with the highest value? Is there another way to obtain a Z value or alternatively, a t-value?
Thank you very much in advance,
Best regards,
Agurne
El mar, 23 feb 2021 a las 13:25, Agurne Sampedro Calvete (< a.sampedro@deusto.es>) escribió:
Dear Freesurfer experts,
I am doing a longitudinal repeated measures analysis and after correcting for multiple comparisons with Z Monte Carlo simulation (with the "mri_glmfit-sim ... --cache 3 ..." command), I obtained a significant cluster for my experimental group (pre-post).
In order to obtain the information for displaying the results in the paper, I am looking at the cluster summary table. I have seen that some papers include the t value in addition to the p value, cluster size and coordinates, but how can I obtain the t value? Does it appear in the cluster summary table or elsewhere?
Thank you very much in advance,
Kind regards,
Agurne
There is no z value for the cluster itself, but you could take the cluster p-value and use it to compute a z value. Or do you want a voxel-wise measure of z value?
On 2/24/2021 4:00 AM, Agurne Sampedro Calvete wrote:
External Email - Use Caution
Dear Freesurfer experts,
In relation to the previous question, could I obtain a Z value of the significant cluster obtained by opening in freeview the z.mgh and place the cursor on the point with the highest value? Is there another way to obtain a Z value or alternatively, a t-value?
Thank you very much in advance,
Best regards,
Agurne
El mar, 23 feb 2021 a las 13:25, Agurne Sampedro Calvete (<a.sampedro@deusto.es mailto:a.sampedro@deusto.es>) escribió:
Dear Freesurfer experts, I am doing a longitudinal repeated measures analysis and after correcting for multiple comparisons with Z Monte Carlo simulation (with the "mri_glmfit-sim ...--cache 3 ..." command), I obtained a significant cluster for my experimental group (pre-post). In order to obtain the information for displaying the results in the paper, I am looking at the cluster summary table. I have seen that some papers include the t value in addition to the p value, cluster size and coordinates, but how can I obtain the t value? Does it appear in the cluster summary table or elsewhere? Thank you very much in advance, Kind regards, Agurne
Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
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Dear Douglas,
And is there a recommended way to compute a z value from the cluster p-value? With voxel-wise measure of z value, do you mean a z value of a particular voxel, for instance, the voxel with the maximum p value in a cluster?
Thank you very much.
Regards,
Agurne
El vie, 26 feb 2021 a las 14:38, Douglas N. Greve (dgreve@mgh.harvard.edu) escribió:
There is no z value for the cluster itself, but you could take the cluster p-value and use it to compute a z value. Or do you want a voxel-wise measure of z value?
On 2/24/2021 4:00 AM, Agurne Sampedro Calvete wrote:
External Email - Use CautionDear Freesurfer experts,
In relation to the previous question, could I obtain a Z value of the significant cluster obtained by opening in freeview the z.mgh and place the cursor on the point with the highest value? Is there another way to obtain a Z value or alternatively, a t-value?
Thank you very much in advance,
Best regards,
Agurne
El mar, 23 feb 2021 a las 13:25, Agurne Sampedro Calvete (< a.sampedro@deusto.es>) escribió:
Dear Freesurfer experts,
I am doing a longitudinal repeated measures analysis and after correcting for multiple comparisons with Z Monte Carlo simulation (with the "mri_glmfit-sim ... --cache 3 ..." command), I obtained a significant cluster for my experimental group (pre-post).
In order to obtain the information for displaying the results in the paper, I am looking at the cluster summary table. I have seen that some papers include the t value in addition to the p value, cluster size and coordinates, but how can I obtain the t value? Does it appear in the cluster summary table or elsewhere?
Thank you very much in advance,
Kind regards,
Agurne
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On 2/26/2021 9:41 AM, Agurne Sampedro Calvete wrote:
External Email - Use Caution
Dear Douglas,
And is there a recommended way to compute a z value from the cluster p-value?
You can use a p-to-z conversion; I'/m not sure it means much though
With voxel-wise measure of z value, do you mean a z value of a particular voxel, for instance, the voxel with the maximum p value in a cluster?
It could be that or the average. I don't know what you are trying to do here so I can't be much help
Thank you very much.
Regards,
Agurne
El vie, 26 feb 2021 a las 14:38, Douglas N. Greve (<dgreve@mgh.harvard.edu mailto:dgreve@mgh.harvard.edu>) escribió:
There is no z value for the cluster itself, but you could take the cluster p-value and use it to compute a z value. Or do you want a voxel-wise measure of z value? On 2/24/2021 4:00 AM, Agurne Sampedro Calvete wrote:External Email - Use Caution Dear Freesurfer experts, In relation to the previous question, could I obtain a Z value of the significant cluster obtained by opening in freeview the z.mgh and place the cursor on the point with the highest value? Is there another way to obtain a Z value or alternatively, a t-value? Thank you very much in advance, Best regards, Agurne El mar, 23 feb 2021 a las 13:25, Agurne Sampedro Calvete (<a.sampedro@deusto.es <mailto:a.sampedro@deusto.es>>) escribió: Dear Freesurfer experts, I am doing a longitudinal repeated measures analysis and after correcting for multiple comparisons with Z Monte Carlo simulation (with the "mri_glmfit-sim ...--cache 3 ..." command), I obtained a significant cluster for my experimental group (pre-post). In order to obtain the information for displaying the results in the paper, I am looking at the cluster summary table. I have seen that some papers include the t value in addition to the p value, cluster size and coordinates, but how can I obtain the t value? Does it appear in the cluster summary table or elsewhere? Thank you very much in advance, Kind regards, Agurne _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> *MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be* https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer <https://secure-web.cisco.com/1OuUm2ZZmU_Mv_OD-lC0xYt9uu9HkbvfOlGsBXoycxv88zfznNxK2gkZ3-BpXQHXRj5I9phInFLVPieluUvviyAJAwbB14IKeZlkCyCjLB3FPwI_ABqIWdKX5mUCCxIbrtmaXCnENNvS3zA9pFt0c3v-zkkQS-exDvqmf9shILKnHuRFXGWKAfEqZtcNirdDw3aNPjyiwrIZnOK1tR27J_UwhA1NnFDg_asS9Zeh3aE-HaumF4H2Y5bbPfmbaITYIz3-g2wGnWBQDTf7JfbkQUw/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer>_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu> *MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be* https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer <https://secure-web.cisco.com/1OuUm2ZZmU_Mv_OD-lC0xYt9uu9HkbvfOlGsBXoycxv88zfznNxK2gkZ3-BpXQHXRj5I9phInFLVPieluUvviyAJAwbB14IKeZlkCyCjLB3FPwI_ABqIWdKX5mUCCxIbrtmaXCnENNvS3zA9pFt0c3v-zkkQS-exDvqmf9shILKnHuRFXGWKAfEqZtcNirdDw3aNPjyiwrIZnOK1tR27J_UwhA1NnFDg_asS9Zeh3aE-HaumF4H2Y5bbPfmbaITYIz3-g2wGnWBQDTf7JfbkQUw/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer>
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Thank you very much Douglas.
Kind regards,
Agurne
Neuropsychology of Severe Medical Conditions Research Team
Dpt of Methods and Experimental Psychology Faculty of Psychology and Education
University of Deusto
neurolab.deusto.es
Avda. de las Universidades 24,
48007, Bilbao (Spain)
Phone: +34 944139000 (ext. 3015)
El lun, 1 mar 2021 a las 16:52, Douglas N. Greve (dgreve@mgh.harvard.edu) escribió:
On 2/26/2021 9:41 AM, Agurne Sampedro Calvete wrote:
External Email - Use CautionDear Douglas,
And is there a recommended way to compute a z value from the cluster p-value?
You can use a p-to-z conversion; I'/m not sure it means much though
With voxel-wise measure of z value, do you mean a z value of a particular voxel, for instance, the voxel with the maximum p value in a cluster?
It could be that or the average. I don't know what you are trying to do here so I can't be much help
Thank you very much.
Regards,
Agurne
El vie, 26 feb 2021 a las 14:38, Douglas N. Greve (dgreve@mgh.harvard.edu) escribió:
There is no z value for the cluster itself, but you could take the cluster p-value and use it to compute a z value. Or do you want a voxel-wise measure of z value?
On 2/24/2021 4:00 AM, Agurne Sampedro Calvete wrote:
External Email - Use CautionDear Freesurfer experts,
In relation to the previous question, could I obtain a Z value of the significant cluster obtained by opening in freeview the z.mgh and place the cursor on the point with the highest value? Is there another way to obtain a Z value or alternatively, a t-value?
Thank you very much in advance,
Best regards,
Agurne
El mar, 23 feb 2021 a las 13:25, Agurne Sampedro Calvete (< a.sampedro@deusto.es>) escribió:
Dear Freesurfer experts,
I am doing a longitudinal repeated measures analysis and after correcting for multiple comparisons with Z Monte Carlo simulation (with the "mri_glmfit-sim ... --cache 3 ..." command), I obtained a significant cluster for my experimental group (pre-post).
In order to obtain the information for displaying the results in the paper, I am looking at the cluster summary table. I have seen that some papers include the t value in addition to the p value, cluster size and coordinates, but how can I obtain the t value? Does it appear in the cluster summary table or elsewhere?
Thank you very much in advance,
Kind regards,
Agurne
Freesurfer mailing listFreesurfer@nmr.mgh.harvard.edu*MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be* https://secure-web.cisco.com/1awj2k_ILPv2pPYn5uzF1coR--LwL2IcYiyQQt4EegX6i0h... https://secure-web.cisco.com/1OuUm2ZZmU_Mv_OD-lC0xYt9uu9HkbvfOlGsBXoycxv88zfznNxK2gkZ3-BpXQHXRj5I9phInFLVPieluUvviyAJAwbB14IKeZlkCyCjLB3FPwI_ABqIWdKX5mUCCxIbrtmaXCnENNvS3zA9pFt0c3v-zkkQS-exDvqmf9shILKnHuRFXGWKAfEqZtcNirdDw3aNPjyiwrIZnOK1tR27J_UwhA1NnFDg_asS9Zeh3aE-HaumF4H2Y5bbPfmbaITYIz3-g2wGnWBQDTf7JfbkQUw/https%3A%2F%2Fmail.nmr.mgh.harvard.edu%2Fmailman%2Flistinfo%2Ffreesurfer
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Agurne Sampedro Calvete -
Douglas N. Greve