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  

|
September 29, 2015 07:30PM
Daniel Glen Wrote:
-------------------------------------------------------
> Typically, a single table should suffice across
> all sub-bricks because they are all based on the
> same volume, error time series and smoothness
> estimates. Do you have another scenario?


Daniel Glen:

Thanks for your reply.
First, I computed the FWHMs for all sub-bricks
in the input dataset, each one separately by 3dFWHMx. So when I want to get the cluster table for each sub-brick, different FWHMs were used. As a result, each sub-brick got different cluster tables.
I will show you the commands so you will know the processing more precisely.



foreach type("Model 0" "F_Task 1" "F_Lang 2" "F_TaskByLang 3" "T_Task 4" "T_Lang 6" "TaskByLang 8" "Lis_Chn-Eng 10" "Rea_Chn-Eng 12" "Chn_Lis-Rea 14" "Eng_Lis-Rea 16" "Listen 18" "Reading 20" "Chinese 22" "English 24" "Lis_Chn 26" "Lis_Eng 28" "Rea_Chn 30" "Rea_Eng 32")
set tt=(`echo ${type} | awk '{print $1}'`)
set n=(`echo ${type} | awk '{print $2}'`)

set fn = ANCOVA.nii\["$n"]

set fx = (`3dFWHMx -dset "$fn" | awk '{print $1}' `)
set fy = (`3dFWHMx -dset "$fn" | awk '{print $2}' `)
set fz = (`3dFWHMx -dset "$fn" | awk '{print $3}' `)
echo "#================================================="
echo "#=== $tt "
echo "#================================================="
# check cluster size with uncrrected P thresh, -fwhmx,y,z from 3dFWHM:
3dClustSim -quiet -mask "$fn" -fwhmxyz $fx $fy $fz -iter 2000 -nodec -niml -prefix
echo " "
echo " "
echo " "
end


Any suggestion?

Mengxing
Subject Author Posted

add cluster tables to relevant statistical datasets

Liu Mengxing September 29, 2015 09:42AM

Re: add cluster tables to relevant statistical datasets

Daniel Glen September 29, 2015 06:13PM

Re: add cluster tables to relevant statistical datasets

Liu Mengxing September 29, 2015 07:30PM

Re: add cluster tables to relevant statistical datasets

Peter Molfese October 01, 2015 11:31AM

Re: add cluster tables to relevant statistical datasets

Emperor Zhark October 01, 2015 09:47AM