Hi everybody,
I already run a seed-based correlation from animals resting state data.
I would like to extract the connected clusters with a threshold corrected for FDR
I have two fMRI data for each animal.
I already coregistrate and pretreated my fMRI data and performed a classical seed-based correlation.
Now, I want to use 3dttest++ on all my z-fisher transformed data (14 animals x2)
So I first try to use 3dttest++ with Clustsim :
'3dttest++', '-setA', subprocess.list2cmdline(listemap), '-Clustsim', '-prefix', 'clustersim-stat_fisher_' + atlas_name2 + '.nii.gz'
and then I try to use the output of this analysis in clusterize to extract them
The problems I found where :
- Could I use 3dttest++ with non-independent (2 fold the same animal) data
- Who could I use a threshold non-corrected pvalue at p<0.05 to found the good cluster-thresholding FDR corrected ?
- I do not know if clusterize already use the output 1D table from this analysis ? If not who could I use it ?
- The nii output contains 2 images ('SetA_mean, and SetA_Zscr), do I have to apply clusterize on the first, second or load both of them in afni ?
I also found that there is an ETAC option,
It is maybe better to use this one ?
So my other questions are:
- Which kind of mask is needed ? My data were already masked but it seems obligatory...
- Is there specific option that I need to use ? -ACF ?
- The default threshold is p<0.05 ?
Thanks for your time !
Dough
