Re: [Freesurfer] A question regarding DODS or DOSS
Dear Doug and Donald Thank you for your kind directions. 1) When I perform DOSS using the contrast (1 -1 0), the significant areas of cortical thinning in patients relative to controls (i.e., temporo-occipital cortex) were similar but more widespread in comparison with those in DODS analysis at the same threshold of CWP 0.05.2) According to your suggestion, I've tried DODS with and without demeaning the covariate (age in my study) and observed virtually same results (to my eyes) between the 2 approaches. I'd appreciated very much your patience with my basic questions. Min Date: Thu, 30 Jan 2014 13:16:42 -0500 From: mclaren.don...@gmail.com To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] A question regarding DODS or DOSS You might also want to read about mean centering and same or different slopes here: http://mumford.fmripower.org/mean_centering/ Best Regards, Donald McLaren = D.G. McLaren, Ph.D. Research Fellow, Department of Neurology, Massachusetts General Hospital and Harvard Medical School Postdoctoral Research Fellow, GRECC, Bedford VA Website: http://www.martinos.org/~mclaren Office: (773) 406-2464 = This e-mail contains CONFIDENTIAL INFORMATION which may contain PROTECTED HEALTHCARE INFORMATION and may also be LEGALLY PRIVILEGED and which is intended only for the use of the individual or entity named above. If the reader of the e-mail is not the intended recipient or the employee or agent responsible for delivering it to the intended recipient, you are hereby notified that you are in possession of confidential and privileged information. Any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited and may be unlawful. If you have received this e-mail unintentionally, please immediately notify the sender via telephone at (773) 406-2464 or email. On Thu, Jan 30, 2014 at 12:03 PM, Douglas N Greve gr...@nmr.mgh.harvard.edu wrote: Technically, you are on safe ground using DODS in that I don't think a reviewer would object. However, I would be a little worried as to whether the group difference is real. Does DOSS start to look like DODS if you lower the threshold? Try running DODS with and without demeaning the covariates to see whether it changes much. doug On 01/28/2014 07:52 PM, KimMJ wrote: Dear Doug Thank you for the prompt reply. I want to make sure: If there is no group*age interaction, is it safe to report the result of group differences using DODS (1 -1 0 0 )? Or is it more appropriate (or mandatory) to further use DOSS to look for group differences (1 -1 0)? The reason why I ask you is that the results of group differences using DODS is satisfactorily significant to support my hypothesis. Sorry for bothering you again with my silly question. Thank you. Min J. Date: Tue, 28 Jan 2014 12:10:42 -0500 From: gr...@nmr.mgh.harvard.edu To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] A question regarding DODS or DOSS On 1/28/14 7:03 AM, KimMJ wrote: Dear Doug and experts My question is about the choice of DODS or DOSS. I want to compare cortical thickness between 2 groups (disease group and control group), while controlling for the effect of age (nuisance covariate). I've already read through the mailing list about the issue of DODS and DOSS designs. If I understand correctly, I have to first use DODS (QDEC) in order to find areas of significant group*age interaction by using the contrast (0 0 1 -1). Given there is no area of interaction that survived multiple comparisons correction, I can go with DOSS (1 -1 0) using mri_glmfit (command line) to test between-group differences in cortical thickness, controlling for the effect of age. Am I right? Yes My another question is that 'MUST' I rerun DOSS model after confirming no group*age interaction in DODS ? Or can I directly use the results of DODS to look for between-group differences controlling for age (1 -1 0 0), since there is no group*age interaction ? Is there much difference in results between the above-mentioned two approaches? Technically, yes, though the results will be different. How different, no one knows. The reason I like going to DODS is that there are no issues with the slopes being slightly different. It does not take much time to re-run it. I've found a reply by Doug from the mailing list: If there is no interaction, then either DODS or DOSS is appropriate. DOSS will be more powerful and a little more interpretable (http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg33418.html http://www.mail-archive.com/freesurfer
Re: [Freesurfer] A question regarding DODS or DOSS
Technically, you are on safe ground using DODS in that I don't think a reviewer would object. However, I would be a little worried as to whether the group difference is real. Does DOSS start to look like DODS if you lower the threshold? Try running DODS with and without demeaning the covariates to see whether it changes much. doug On 01/28/2014 07:52 PM, KimMJ wrote: Dear Doug Thank you for the prompt reply. I want to make sure: If there is no group*age interaction, is it safe to report the result of group differences using DODS (1 -1 0 0 )? Or is it more appropriate (or mandatory) to further use DOSS to look for group differences (1 -1 0)? The reason why I ask you is that the results of group differences using DODS is satisfactorily significant to support my hypothesis. Sorry for bothering you again with my silly question. Thank you. Min J. Date: Tue, 28 Jan 2014 12:10:42 -0500 From: gr...@nmr.mgh.harvard.edu To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] A question regarding DODS or DOSS On 1/28/14 7:03 AM, KimMJ wrote: Dear Doug and experts My question is about the choice of DODS or DOSS. I want to compare cortical thickness between 2 groups (disease group and control group), while controlling for the effect of age (nuisance covariate). I've already read through the mailing list about the issue of DODS and DOSS designs. If I understand correctly, I have to first use DODS (QDEC) in order to find areas of significant group*age interaction by using the contrast (0 0 1 -1). Given there is no area of interaction that survived multiple comparisons correction, I can go with DOSS (1 -1 0) using mri_glmfit (command line) to test between-group differences in cortical thickness, controlling for the effect of age. Am I right? Yes My another question is that 'MUST' I rerun DOSS model after confirming no group*age interaction in DODS ? Or can I directly use the results of DODS to look for between-group differences controlling for age (1 -1 0 0), since there is no group*age interaction ? Is there much difference in results between the above-mentioned two approaches? Technically, yes, though the results will be different. How different, no one knows. The reason I like going to DODS is that there are no issues with the slopes being slightly different. It does not take much time to re-run it. I've found a reply by Doug from the mailing list: If there is no interaction, then either DODS or DOSS is appropriate. DOSS will be more powerful and a little more interpretable (http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg33418.html http://www.mail-archive.com/freesurfer%40nmr.mgh.harvard.edu/msg33418.html). From this context, what does the 'powerful' mean? Does DOSS yield higher statistical values than DODS? It means that you will have a higher degrees of freedom. All other things being equal, it means more significant p values. doug Apology for the beginner's questions. Thank you in advance for your help. MJ ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu mailto: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 mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 www.nmr.mgh.harvard.edu/facility/filedrop/index.html Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Re: [Freesurfer] A question regarding DODS or DOSS
You might also want to read about mean centering and same or different slopes here: *http://mumford http://mumford*.fmripower.org/*mean*_*centering*/ Best Regards, Donald McLaren = D.G. McLaren, Ph.D. Research Fellow, Department of Neurology, Massachusetts General Hospital and Harvard Medical School Postdoctoral Research Fellow, GRECC, Bedford VA Website: http://www.martinos.org/~mclaren Office: (773) 406-2464 = This e-mail contains CONFIDENTIAL INFORMATION which may contain PROTECTED HEALTHCARE INFORMATION and may also be LEGALLY PRIVILEGED and which is intended only for the use of the individual or entity named above. If the reader of the e-mail is not the intended recipient or the employee or agent responsible for delivering it to the intended recipient, you are hereby notified that you are in possession of confidential and privileged information. Any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited and may be unlawful. If you have received this e-mail unintentionally, please immediately notify the sender via telephone at (773) 406-2464 or email. On Thu, Jan 30, 2014 at 12:03 PM, Douglas N Greve gr...@nmr.mgh.harvard.edu wrote: Technically, you are on safe ground using DODS in that I don't think a reviewer would object. However, I would be a little worried as to whether the group difference is real. Does DOSS start to look like DODS if you lower the threshold? Try running DODS with and without demeaning the covariates to see whether it changes much. doug On 01/28/2014 07:52 PM, KimMJ wrote: Dear Doug Thank you for the prompt reply. I want to make sure: If there is no group*age interaction, is it safe to report the result of group differences using DODS (1 -1 0 0 )? Or is it more appropriate (or mandatory) to further use DOSS to look for group differences (1 -1 0)? The reason why I ask you is that the results of group differences using DODS is satisfactorily significant to support my hypothesis. Sorry for bothering you again with my silly question. Thank you. Min J. Date: Tue, 28 Jan 2014 12:10:42 -0500 From: gr...@nmr.mgh.harvard.edu To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] A question regarding DODS or DOSS On 1/28/14 7:03 AM, KimMJ wrote: Dear Doug and experts My question is about the choice of DODS or DOSS. I want to compare cortical thickness between 2 groups (disease group and control group), while controlling for the effect of age (nuisance covariate). I've already read through the mailing list about the issue of DODS and DOSS designs. If I understand correctly, I have to first use DODS (QDEC) in order to find areas of significant group*age interaction by using the contrast (0 0 1 -1). Given there is no area of interaction that survived multiple comparisons correction, I can go with DOSS (1 -1 0) using mri_glmfit (command line) to test between-group differences in cortical thickness, controlling for the effect of age. Am I right? Yes My another question is that 'MUST' I rerun DOSS model after confirming no group*age interaction in DODS ? Or can I directly use the results of DODS to look for between-group differences controlling for age (1 -1 0 0), since there is no group*age interaction ? Is there much difference in results between the above-mentioned two approaches? Technically, yes, though the results will be different. How different, no one knows. The reason I like going to DODS is that there are no issues with the slopes being slightly different. It does not take much time to re-run it. I've found a reply by Doug from the mailing list: If there is no interaction, then either DODS or DOSS is appropriate. DOSS will be more powerful and a little more interpretable ( http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg33418.html http://www.mail-archive.com/freesurfer%40nmr.mgh.harvard.edu/msg33418.html ). From this context, what does the 'powerful' mean? Does DOSS yield higher statistical values than DODS? It means that you will have a higher degrees of freedom. All other things being equal, it means more significant p values. doug Apology for the beginner's questions. Thank you in advance for your help. MJ ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu mailto: Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https
[Freesurfer] A question regarding DODS or DOSS
Dear Doug and experts My question is about the choice of DODS or DOSS.I want to compare cortical thickness between 2 groups (disease group and control group), while controlling for the effect of age (nuisance covariate).I've already read through the mailing list about the issue of DODS and DOSS designs. If I understand correctly, I have to first use DODS (QDEC) in order to find areas of significant group*age interaction by using the contrast (0 0 1 -1).Given there is no area of interaction that survived multiple comparisons correction, I can go with DOSS (1 -1 0) using mri_glmfit (command line) to test between-group differences in cortical thickness, controlling for the effect of age. Am I right? My another question is that 'MUST' I rerun DOSS model after confirming no group*age interaction in DODS ? Or can I directly use the results of DODS to look for between-group differences controlling for age (1 -1 0 0), since there is no group*age interaction ?Is there much difference in results between the above-mentioned two approaches?I've found a reply by Doug from the mailing list: If there is no interaction, then either DODS or DOSS is appropriate. DOSS will be more powerful and a little more interpretable (http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg33418.html). From this context, what does the 'powerful' mean? Does DOSS yield higher statistical values than DODS? Apology for the beginner's questions.Thank you in advance for your help. MJ___ 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.
Re: [Freesurfer] A question regarding DODS or DOSS
On 1/28/14 7:03 AM, KimMJ wrote: Dear Doug and experts My question is about the choice of DODS or DOSS. I want to compare cortical thickness between 2 groups (disease group and control group), while controlling for the effect of age (nuisance covariate). I've already read through the mailing list about the issue of DODS and DOSS designs. If I understand correctly, I have to first use DODS (QDEC) in order to find areas of significant group*age interaction by using the contrast (0 0 1 -1). Given there is no area of interaction that survived multiple comparisons correction, I can go with DOSS (1 -1 0) using mri_glmfit (command line) to test between-group differences in cortical thickness, controlling for the effect of age. Am I right? Yes My another question is that 'MUST' I rerun DOSS model after confirming no group*age interaction in DODS ? Or can I directly use the results of DODS to look for between-group differences controlling for age (1 -1 0 0), since there is no group*age interaction ? Is there much difference in results between the above-mentioned two approaches? Technically, yes, though the results will be different. How different, no one knows. The reason I like going to DODS is that there are no issues with the slopes being slightly different. It does not take much time to re-run it. I've found a reply by Doug from the mailing list: If there is no interaction, then either DODS or DOSS is appropriate. DOSS will be more powerful and a little more interpretable (http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg33418.html). From this context, what does the 'powerful' mean? Does DOSS yield higher statistical values than DODS? It means that you will have a higher degrees of freedom. All other things being equal, it means more significant p values. doug Apology for the beginner's questions. Thank you in advance for your help. MJ ___ 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.
Re: [Freesurfer] A question regarding DODS or DOSS
Dear Doug Thank you for the prompt reply.I want to make sure: If there is no group*age interaction, is it safe to report the result of group differences using DODS (1 -1 0 0 )?Or is it more appropriate (or mandatory) to further use DOSS to look for group differences (1 -1 0)?The reason why I ask you is that the results of group differences using DODS is satisfactorily significant to support my hypothesis. Sorry for bothering you again with my silly question.Thank you. Min J. Date: Tue, 28 Jan 2014 12:10:42 -0500 From: gr...@nmr.mgh.harvard.edu To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] A question regarding DODS or DOSS On 1/28/14 7:03 AM, KimMJ wrote: Dear Doug and experts My question is about the choice of DODS or DOSS. I want to compare cortical thickness between 2 groups (disease group and control group), while controlling for the effect of age (nuisance covariate). I've already read through the mailing list about the issue of DODS and DOSS designs. If I understand correctly, I have to first use DODS (QDEC) in order to find areas of significant group*age interaction by using the contrast (0 0 1 -1). Given there is no area of interaction that survived multiple comparisons correction, I can go with DOSS (1 -1 0) using mri_glmfit (command line) to test between-group differences in cortical thickness, controlling for the effect of age. Am I right? Yes My another question is that 'MUST' I rerun DOSS model after confirming no group*age interaction in DODS ? Or can I directly use the results of DODS to look for between-group differences controlling for age (1 -1 0 0), since there is no group*age interaction ? Is there much difference in results between the above-mentioned two approaches? Technically, yes, though the results will be different. How different, no one knows. The reason I like going to DODS is that there are no issues with the slopes being slightly different. It does not take much time to re-run it. I've found a reply by Doug from the mailing list: If there is no interaction, then either DODS or DOSS is appropriate. DOSS will be more powerful and a little more interpretable (http://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg33418.html). From this context, what does the 'powerful' mean? Does DOSS yield higher statistical values than DODS? It means that you will have a higher degrees of freedom. All other things being equal, it means more significant p values. doug Apology for the beginner's questions. Thank you in advance for your help. MJ ___ 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 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.
