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Using 3dREMLfit - 2
¥ Step 2: run 3dREMLfit ; perhaps adding options to the command line:
H -addbase : add extra baseline columns to the regression matrix
H -slibase : add extra baseline columns to the regression matrix, on a per slice basis = intended to aid in removal of physiological noise
H  -gltsym    : add extra GLTs (beyond those from 3dDeconvolve)
H -usetemp : -slibase can require a lot of memory
o Generates REML matrices for many (a,b) cases for each slice
o This option writes & reads temporary matrices to disk to reduce RAM usage
å -verb : outputs information about memory usage as program runs
H -Obuck : output OLSQ bucket dataset (etc.)
o -Rbuck   : output GLSQ bucket (stimulus bs and statistics)
o -Rbeta   : output GLSQ (all the bs and only the bs; no statistics)
o -Rfitts : output GLSQ fitted model
o -Rvar    : output GLSQ (a,b) parameters and variance estimate (per voxel)
H -NEGcor : allow negative correlations in the estimation
oProbably not really needed for FMRI, but option is there just in case
oThere are more options to control estimation of the (a,b) parameters
¥ Of course: read the output of 3dREMLfit -help