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--- jvs:fscan:manual:chapter2:design [2011/11/07 18:23]
voyvodic
+++ jvs:fscan:manual:chapter2:design [2023/02/23 18:43] (current)
@@ Line 2: / Line 2: @@
 ===== Designmatrix -- Create and manipulate task design matrix=====
 **usage: -designmatrix [NAME designname] [flag]**
-	-design [flg] [[NAME] dmname] [TR trsecs] [LENGTH ntrs] [DT dtsecs] [NZ nz] varb1 [flg1] varb2 [flg2] ...
-			; load REF varbs (varb1...) into design data variable
-		FLG: 0 - default
-- convolve with HRF
-- add derivative varb
-- per image (else per TR)
-	-design [flg] [[NAME] dmname] [TR trsecs] [DT dtsecs] filename.mat
-			; read FILENAME.MAT design matrix file into design data
-			; (current active design variable is the default if NAME not specified)
-	-design [flg] [[NAME] dmname] [LABEL varb1name varb2name ...]
-			; adjust design data parameters
-	-design [flg] [[NAME] dmname] filename.con
-			; read FILENAME.CON design contrast file into design data
-			; (current active design variable is the default if NAME not specified)
-	-design imagedata [[NAME] dmname]
+  	-design [flg] [[NAME] dmname] [TR trsecs] [LENGTH ntrs] [DT dtsecs] [NZ nz] varb1 [flg1] varb2 [flg2] ...
-			; link design variable NAME to the named image data set
+  			; load REF varbs (varb1...) into design data variable
-	-design name
+  		FLG: 0 - default
-			; make the internal design data variable NAME the current active design data
+- convolve with HRF
-			; Note: The current active design pointer is set in all DESIGN cmds.
+- add derivative varb
-	-design [name] contrast col1 [-] col2 [label] [col3 [-] col4 [label]] ...
+- different slices can have different values (otherwise there is only one value per TR)
-			; create contrast matrix specifying pairs of columns in the design matrix
+  	-design [flg] [[NAME] dmname] [TR trsecs] [DT dtsecs] filename.mat
+  			; read FILENAME.MAT design matrix file into design data
-	-design [name] add
+  			; (current active design variable is the default if NAME not specified)
-			;
+  	-design [flg] [[NAME] dmname] [LABEL varb1name varb2name ...]
-	-design [name] select
+  			; adjust design data parameters
-			;
-	-design name delete
+  	-design [flg] [[NAME] dmname] filename.con
-			;
+  			; read FILENAME.CON design contrast file into design data
-	See also:  -output DESIGN [flag] [name] filename
+  			; (current active design variable is the default if NAME not specified)
-					FLAG: XML vs FSL format
+  	-design imagedata [[NAME] dmname]
-			   -output REF    [flag] [name] filename
+  			; link design variable NAME to the named image data set
+  	-design dmname
+  			; make the internal design data variable DMNAME the current active design data
+  			; Note: The current active design pointer is set in all DESIGN cmds.
+  	-design [name] contrast col1 [-] col2 [label] [col3 [-] col4 [label]] ...
+  			; create contrast matrix specifying pairs of columns in the design matrix
+  	-design [name] add
+  			;
+  	-design [name] select
+  			;
+  	-design name delete
+  			;
+  	See also:  -output DESIGN [flag] [name] filename
+  					FLAG: XML vs FSL format
+  			   -output REF    [flag] [name] filename
 **See Also:**\\
 [[jvs:fscan|fScan Home]],

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