Hi,
I am trying to save images from the 3dLME results with 3dClustsim clusterized.
My Afni command is
afni -com 'SET_XHAIRS A.OFF' \
-com 'OPEN_WINDOW A.axialimage mont=3x5:4' \
-com 'OPEN_WINDOW A.sagittalimage mont=3x5:4' \
-com 'SWITCH_UNDERLAY A.avg152T1_2p5.nii' \
-com 'SWITCH_OVERLAY A.output.myLME+tlrc' \
-com 'SET_FUNC_RANGE A.0' \
-com 'SET_SUBBRICKS A 0 8 8'\
-com 'SET_DICOM_XYZ A 0 -0.75 15.5'\
-com 'SET_THRESHNEW A 0.005 *p'
-com 'SAVE_JPEG A.axialimage Axial.jpg blowup=3'\
-com 'SAVE_JPEG A.sagittalimage Sagittal.jpg blowup=3'
I already calculated 3dClustsim and apply them to 'output.myLME+tlrc' by 3drefit. But with the command above, I can't get the images clusterized.
So I just ran
afni -com 'SET_XHAIRS A.OFF' \
-com 'OPEN_WINDOW A.axialimage mont=3x5:4' \
-com 'OPEN_WINDOW A.sagittalimage mont=3x5:4' \
-com 'SWITCH_UNDERLAY A.avg152T1_2p5.nii' \
-com 'SWITCH_OVERLAY A.output.myLME+tlrc' \
-com 'SET_FUNC_RANGE A.0' \
-com 'SET_SUBBRICKS A 0 8 8'\
-com 'SET_DICOM_XYZ A 0 -0.75 15.5'\
-com 'SET_THRESHNEW A 0.005 *p'
and manually click 'Clusteize' on the Afni window and change NN level and # of voxel, and click 'set'. Then I need to put the name of images manually to
save them. I need to do these tedious jobs whenever I open Afni window to save them.
Is there any way to change NN level and # of voxel in the 'Clusterize' via command line, for example, I roughly guess that it might be '-com 'Clusterize_NN' 3'?
Thanks.
Jung