CAT12 Manual

User Manual:

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Page Count: 52

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567'8&9/-:/&;67<=>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> ?!
7@/:A<6'/7A@&-@<&AB=:B7=C >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> D!
;=//7@;&9/-:/=<>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> D!
Download!and!Installation! 5!
Starting!the!Toolbox! 6!
Basic!VBM!analysis!(overview)! 6!
E-97'&BE!&-@-FG979&H<=/-7F=<&<=9':7I/7A@J >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> K!
Preprocessing+Data+ 9!
First!Module:!Segment!Data! 9!
Second!Module:!Display!one!slice!for!all!images!11!
Third!Module:!Check!sample!homogeneity!11!
Fourth!Module:!Smooth!13!
Fifth!Module:!Estimate!Total!Intracranial!Volume!(TIV)!13!
Building+the+Statistical+Model+14!
Two-sample!T-Test!15!
Full!Factorial!Model!(for!a!2x2!Anova)!16!
Multiple!Regression!(Linear)!17!
Multiple!Regression!(Polynomial)!18!
Full!Factorial!Model!(Interaction)!19!
Full!Factorial!Model!(Polynomial!Interaction)!20!
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Estimating!the!Statistical!Model!21!
Checking!for!Design!Orthogonality!21!
Defining!Contrasts!23!
9I='7-F&'-9=9>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> 4L!
CAT12+for+longitudinal+data+28!
Optional!Change!of!Parameters!for!Preprocessing!30!
Preprocessing!of!Longitudinal!Data!30!
Statistical!Analysis!of!Longitudinal!Data!in!One!Group!31!
Statistical!Analysis!of!Longitudinal!Data!in!Two!Groups!32!
Adapting+the+workflows+36!
Customized!Tissue!Probability!Maps!36!
Customized!DARTEL-template!37!
A/M=:&B-:7-@/9&AN&'A!I6/-/7A@-F&!A:IMA!=/:G >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> OP!
Deformation-based+morphometry+(DBM)+40!
Surface-based+morphometry+(SBM)+41!
Region+of+interest+(ROI)+analysis+44!
-<<7/7A@-F&7@NA:!-/7A@&A@&@-/7B=Q&@A:!-F7R=<&-@<&!A<6F-/=<&BAF6!=9>>>>>>>>>>>>>>>>>>>> OS!
@-!7@;&'A@B=@/7A@&AN&A6/I6/&N7F=9>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> OT!
'-FF7@;&'-/&N:A!&/M=&6@7U&'A!!-@<&F7@= >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> OK!
/='M@7'-F&7@NA:!-/7A@ >>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>> OK!
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Fig$4.:$Flowchart$for$processing$longitudinal$data$with$CAT12.$This$figure$shows$the$steps$
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includes$ a$ bias$ correction$ between$ the$ different$ time$ points,$ the$ mean$ image$ of$ the$
realigned$images$is$calculated$(mean).$Spatial$normalization$parameters$with$the$help$of$a$
Dartel$ Normalization$ are$ estimated$ in$ the$ next$ step$ based$ on$ the$ segmentations$ of$ the$
mean$ image.$ These$ normalization$ parameters$ are$ applied$ to$ the$ segmentations$ of$ the$
images$of$all$time$points$(p1rix)$and$are$finally$modulated$(mwp1rix).$
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Here$n1$and$n2$are$the$number$of$subjects$in$Group$A$and$B$respectively$and$n$is$the$number$of$time$
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About$the$TOM8$Toolbox:$
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$select$Module$“create$new$template”$
$
!
$select$“TOM.mat”$(you$will$have$to$download$this$file$together$with$the$toolbox)$
$
!
$write$priors/template$as$single$file$
!
$for$all$others$use$default$settings$or$modify.$For$“Age”$either$a$vector$or$a$mean$age$
(when$using$the$average$approach)$must$be$specified.$
Implementation$into$CAT12:$
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