From dgreve@mgh.harvard.edu Thu Jan 12 09:47:24 2023
From: "Douglas N. Greve" <dgreve@mgh.harvard.edu>
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] correlation analysis two groups (paired analysis)
Date: Thu, 12 Jan 2023 09:47:14 -0500
Message-ID: <52742563-c69d-c9bb-bb32-ab1c4b48e155@mgh.harvard.edu>
In-Reply-To:
 <CAJsj2xiXwvhsDhRcfT2pa_BSz8VnZgMm_momULGke1OdyywmaQ@mail.gmail.com>
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If you are looking for the difference in the correlation between the=20
groups then you have to use DODS and 0 0 1 -1. The way to understand it=20
is that you have four regression coefficients and each means something.=20
The way you have it set up in the fsgd file is that they are
1. group 1 intercept
2. group 2 intercept
3. group 1 cognition slope
4. group 2 coginition slope
Each coefficient gets multipled by its corresponding weight in the=20
contrast and then the results are summed. So if you use 0 0 1 -1 you end=20
up with contrast =3D g1cogslope-g2cogslope which is the difference you want

If you are just interested in whether the cog slope changes without=20
regard to the group, then you would use 0 0 0.5 0.5 which means contrast=20
=3D 0.5*g1cogslope + 0.5*g2cogslope which is the average of the slopes. In=20
this case, using DOSS and 0 0 1 will give you the same results if there=20
is no difference in the cog slopes between the groups



On 1/12/2023 8:48 AM, Agurne Sampedro Calvete wrote:
>
> =C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0=C2=A0External Email - Use Caution
>
> Dear FreeSurfer experts,
>
> I have two groups and two time points and I would like to do a=20
> correlation analysis between a variable (cognition) and the change=20
> score in cortical thickness between the two time points (time2 minus=20
> time1).
>
> I would=C2=A0like to see if the *correlation *is *different *among each=20
> group, if there is an interaction with the group.
>
> I have followed the paired t test instructions (*MailScanner has=20
> detected a possible fraud attempt from "secure-web.cisco.com" claiming=20
> to be* https://surfer.nmr.mgh.harvard.edu/fswiki/PairedAnalysis=20
> <https://secure-web.cisco.com/11YHUupGYyGBe5w6QAQb3OOLcNluK0Tqv4VUmAmDx5wuo=
gvWlaypoD3OpvEWBM2c4Wa29T38k5k4_bq_JXA-kc8P0mACbCulAMmVSDKvC4Tl7x6Gk2A_azFExS=
cL0y5HFngabH5bZRoIDy_dKvAtXkXegvTr-2ftNMkD3TQlTwaQtCSI-0554BriqrUu1MKXy2ZDf8l=
6cSP5im59p93FqJma0yYa3cYXujDp-aXCIOKlUXzojlgBIskwrWMiPG0pmIn08tOj1OYgSExrdJrO=
rWu2iAIGdhvSK3iuWEQ7BCEp4De-DPfIldNoZfbygVQ1mrt9CvPacDWwenDkjC7Q40A/https%3A%=
2F%2Fsurfer.nmr.mgh.harvard.edu%2Ffswiki%2FPairedAnalysis>),=20
> but I am not sure about the contrast(s) I have to use.
>
> The paired-diff.fsgd file (second fsgd file) is the following:
>
> GroupDescriptorFile 1
> Title OSGM
> Class Group1
> Class Group2
> Variables cognition
> Input subject1pair=C2=A0Group1 0.546
> Input subject1pair=C2=A0Group2=C2=A0-0.243
> ...
>
> How should=C2=A0it be the contrasts files to see the *correlation *of the=20
> variable cognition with the change score in thickness taking into=20
> account the groups? And should I use DODS or DOSS?
>
> Using DODS:
> 0 0 0.5 0.5
> =C2=A0or
> 0 0 1 -1
>
> I don't understand the difference between both contrasts. I think I=20
> should use the one of "0 0 1 -1" to see whether the cognition variable=20
> correlates with change in thickness differently according to the=20
> group. Is this correct?
>
> Using DOSS:
> 0 0 1
>
> Thank you very much in advance.
>
> Kind regards,
>
> Agurne
>
>
>
>
>
>
> _______________________________________________
> Freesurfer mailing list
> Freesurfer(a)nmr.mgh.harvard.edu
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer



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