AFNI Message Board

Dear AFNI users-

We are very pleased to announce that the new AFNI Message Board framework is up! Please join us at:

https://discuss.afni.nimh.nih.gov

Existing user accounts have been migrated, so returning users can login by requesting a password reset. New users can create accounts, as well, through a standard account creation process. Please note that these setup emails might initially go to spam folders (esp. for NIH users!), so please check those locations in the beginning.

The current Message Board discussion threads have been migrated to the new framework. The current Message Board will remain visible, but read-only, for a little while.

Sincerely, AFNI HQ

History of AFNI updates  

|
May 03, 2016 11:35AM
Thanks, but I am having confusing results with this. When I run 3dFWHMx on my errts file

3dFWHMx -input SC01313_EGNG_SIEMENS_s1_Emo_RespXErr_SPMG3_errts_bucket+tlrc -ACF
# ACF model parameters for a*exp(-r*r/(2*b*b))+(1-a)*exp(-r/c) plus effective FWHM
0.961511 3.20408 7.81402 7.72251

Other errts files from this data set give similar results. Then from 3dClustSim I get:

3dClustSim -acf 0.961511 3.20408 7.81402 -mask MNI152_T1_3mm_brain_graymattermask.nii.gz
# CLUSTER SIZE THRESHOLD(pthr,alpha) in Voxels
# -NN 1 | alpha = Prob(Cluster >= given size)
# pthr | .10000 .05000 .02000 .01000
# ------ | ------ ------ ------ ------
0.050000 67.3 75.5 87.0 95.0
0.020000 30.6 34.2 39.2 43.0
0.010000 19.8 22.2 25.3 27.6
0.005000 13.8 15.5 17.8 19.5
0.002000 9.2 10.5 12.1 13.1
0.001000 7.0 8.0 9.3 10.2
0.000500 5.5 6.3 7.3 8.2
0.000200 4.0 4.6 5.5 6.1
0.000100 3.1 3.7 4.4 5.0

When I run it the old fashioned way, I get:

3dClustSim -fwhm 6 -mask MNI152_T1_3mm_brain_graymattermask.nii.gz
# CLUSTER SIZE THRESHOLD(pthr,alpha) in Voxels
# -NN 1 | alpha = Prob(Cluster >= given size)
# pthr | .10000 .05000 .02000 .01000
# ------ | ------ ------ ------ ------
0.050000 97.3 110.1 126.8 137.5
0.020000 44.9 50.7 58.1 63.1
0.010000 29.0 32.5 37.4 41.2
0.005000 20.1 22.9 26.6 29.2
0.002000 13.3 15.1 17.9 19.6
0.001000 10.0 11.6 13.7 15.2
0.000500 7.7 9.0 10.6 12.0
0.000200 5.5 6.6 7.9 8.9
0.000100 4.3 5.1 6.3 7.1

Why would my cluster sized be LESS stringent the newer way? Is there anything wrong with the way I am extracting the ACF parameters?

Thank you
Subject Author Posted

3dClustSim Update

3dFoodie April 27, 2016 03:05PM

Re: 3dClustSim Update

Bob Cox April 28, 2016 10:23AM

Re: 3dClustSim Update

efemeri April 28, 2016 10:37AM

Re: 3dClustSim Update

Bob Cox April 28, 2016 12:33PM

Re: 3dClustSim Update

3dFoodie May 03, 2016 11:35AM

Re: 3dClustSim Update

rick reynolds May 03, 2016 01:33PM

Re: 3dClustSim Update

3dFoodie May 04, 2016 11:04AM

Re: 3dClustSim Update

rick reynolds May 04, 2016 11:41AM