Hi,
I am running ETAC for the first time and am having trouble figuring out what all the output files are, even after reading the help and a slide deck I found.
I ran ETAC with the following commands:
-ETAC 8 \
-ETAC_blur 0 2 \
-ETAC_opt NN=1:sid=2:hpow=1:pthr=0.05,0.01:name=Fred1 \
-ETAC_opt NN=2:sid=2:hpow=1:pthr=0.05,0.01:name=Fred2 \
I got the following output files:
globalETAC.mthresh.TT.Ynlg4NLdW0M.Fred1.ETAC.B0.0.5perc.niml
globalETAC.mthresh.TT.Ynlg4NLdW0M.Fred1.ETAC.B2.0.5perc.niml
globalETAC.mthresh.TT.Ynlg4NLdW0M.Fred2.ETAC.B0.0.5perc.niml
globalETAC.mthresh.TT.Ynlg4NLdW0M.Fred2.ETAC.B2.0.5perc.niml
post-pre_n16_seed162_Yeo_17_47_positive_all_pairedttest.B0.0.nii
post-pre_n16_seed162_Yeo_17_47_positive_all_pairedttest.B2.0.nii
post-pre_n16_seed162_Yeo_17_47_positive_all_pairedttest+tlrc.BRIK
post-pre_n16_seed162_Yeo_17_47_positive_all_pairedttest+tlrc.HEAD
post-pre_n16_seed162_Yeo_17_47_positive_all_pairedttest_ttest_etacb0pt05h0and2nn1.nii.gz
post-pre_n16_seed162_Yeo_17_47_positive_all_pairedttest_ttest.nii.gz
TT.Ynlg4NLdW0M.B0.0.5percent.txt
TT.Ynlg4NLdW0M.B2.0.5percent.txt
TT.Ynlg4NLdW0M.CSimB0.0.cmd
TT.Ynlg4NLdW0M.CSimB0.0.NN1_1sided.1D
TT.Ynlg4NLdW0M.CSimB0.0.NN1_2sided.1D
TT.Ynlg4NLdW0M.CSimB0.0.NN1_bisided.1D
TT.Ynlg4NLdW0M.CSimB0.0.NN2_1sided.1D
TT.Ynlg4NLdW0M.CSimB0.0.NN2_2sided.1D
TT.Ynlg4NLdW0M.CSimB0.0.NN2_bisided.1D
TT.Ynlg4NLdW0M.CSimB0.0.NN3_1sided.1D
TT.Ynlg4NLdW0M.CSimB0.0.NN3_2sided.1D
TT.Ynlg4NLdW0M.CSimB0.0.NN3_bisided.1D
TT.Ynlg4NLdW0M.CSimB2.0.cmd
TT.Ynlg4NLdW0M.CSimB2.0.NN1_1sided.1D
TT.Ynlg4NLdW0M.CSimB2.0.NN1_2sided.1D
TT.Ynlg4NLdW0M.CSimB2.0.NN1_bisided.1D
TT.Ynlg4NLdW0M.CSimB2.0.NN2_1sided.1D
TT.Ynlg4NLdW0M.CSimB2.0.NN2_2sided.1D
TT.Ynlg4NLdW0M.CSimB2.0.NN2_bisided.1D
TT.Ynlg4NLdW0M.CSimB2.0.NN3_1sided.1D
TT.Ynlg4NLdW0M.CSimB2.0.NN3_2sided.1D
TT.Ynlg4NLdW0M.CSimB2.0.NN3_bisided.1D
TT.Ynlg4NLdW0M.Fred1.ETACmask.2sid.5perc.nii.gz
TT.Ynlg4NLdW0M.Fred1.ETACmaskALL.2sid.5perc.nii.gz
TT.Ynlg4NLdW0M.Fred1.ETACmaskALL.global.2sid.5perc.nii.gz
TT.Ynlg4NLdW0M.Fred1.ETACmask.global.2sid.5perc.nii.gz
TT.Ynlg4NLdW0M.Fred1.ETAC.mthresh.B0.0.5perc.nii
TT.Ynlg4NLdW0M.Fred1.ETAC.mthresh.B2.0.5perc.nii
TT.Ynlg4NLdW0M.Fred2.ETACmask.2sid.5perc.nii.gz
TT.Ynlg4NLdW0M.Fred2.ETACmaskALL.2sid.5perc.nii.gz
TT.Ynlg4NLdW0M.Fred2.ETACmaskALL.global.2sid.5perc.nii.gz
TT.Ynlg4NLdW0M.Fred2.ETACmask.global.2sid.5perc.nii.gz
TT.Ynlg4NLdW0M.Fred2.ETAC.mthresh.B0.0.5perc.nii
TT.Ynlg4NLdW0M.Fred2.ETAC.mthresh.B2.0.5perc.nii
This seems to be suggested as the file we want to look at:
TT.Ynlg4NLdW0M.Fred1.ETACmask.global.2sid.5perc.nii.gz
This should be: a binary mask file indicating which voxels survived the multi-thresholding process. Now does that mean the various smoothing and thresholds specified? and hpow?
If I want to investigate which combination of smoothing and threshold value a voxel survived, then I can look at:
TT.Ynlg4NLdW0M.Fred1.ETACmaskALL.global.2sid.5perc.nii.gz
Where in theory, if I combined the b0 .05 and the b2 .05 maps they should match Fred1.ETACmask.global.2sid.5per?
From reading the help it seems like you are suggesting the global threshold, even though one of the cool things when ETAC first came out seemed to be the threshold that varied across cortex? We are seeing some pretty major differences between the local and global masks.
Fred1.ETACmask.global.2sid.5per
and
Fred1.ETACmask.2sid.5per
In that there is much more activation that survives in the 'local' thresholded file. However, I am also not sure I know what to look at, as there are now 8 layers instead of 4 (two each for each smoothing and threshold level).
I also ran this once with hpow1,2, and I could not tell in the output files what happened to the hpow values. I didn't get any more layers or files, so I wasn't sure how the two levels were represented.
Thank you!
Stephanie McMains
