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help > RE: conn_module for simultaneous filtering
Feb 6, 2021 07:02 AM | Lorenzo Pasquini - Klinikum rechts der Isar Technische Universitaet Muenchen
RE: conn_module for simultaneous filtering
Thanks Alfonso,the script is working.
Is the following con_module script performing despiking and "rest"regression too?
conn_module( 'preprocessing', ...
'structurals', {'/Volumes/My_Book/test/anat.nii'}, ...
'functionals', {'/Volumes/My_Book/test/f.nii'}, ...
'steps', {'default_mni', 'functional_bandpass','functional_regression'}, ...
'sliceorder', 'ascending', ...
'fwhm', 6, ...
'reg_names', {'realignment','scrubbing','White Matter','CSF'}, ...
'reg_dimensions',[inf, inf, 5, 5], ...
'reg_deriv', [1, 0, 0, 0], ...
'bp_filter', [0.008 0.09],...
'reg_filter', [1 0 1 1])
The output from the module is very different if I run the same
analysis with the GUI.
It looks as if the bandpass, denoised data was not demeaned and signal is found outside the skull when using the module.
The distribution of the values is very different! Am I missing some variable here to perform the default preprocessing as when using the gui?
The only two aspects I change in the gui are the smoothing kernel (6) and simult, as in the conn_module script.
Thanks for all your help
Lorenzo
Is the following con_module script performing despiking and "rest"regression too?
conn_module( 'preprocessing', ...
'structurals', {'/Volumes/My_Book/test/anat.nii'}, ...
'functionals', {'/Volumes/My_Book/test/f.nii'}, ...
'steps', {'default_mni', 'functional_bandpass','functional_regression'}, ...
'sliceorder', 'ascending', ...
'fwhm', 6, ...
'reg_names', {'realignment','scrubbing','White Matter','CSF'}, ...
'reg_dimensions',[inf, inf, 5, 5], ...
'reg_deriv', [1, 0, 0, 0], ...
'bp_filter', [0.008 0.09],...
'reg_filter', [1 0 1 1])
It looks as if the bandpass, denoised data was not demeaned and signal is found outside the skull when using the module.
The distribution of the values is very different! Am I missing some variable here to perform the default preprocessing as when using the gui?
The only two aspects I change in the gui are the smoothing kernel (6) and simult, as in the conn_module script.
Thanks for all your help
Lorenzo
Threaded View
| Title | Author | Date |
|---|---|---|
| Lorenzo Pasquini | Feb 4, 2021 | |
| Alfonso Nieto-Castanon | Feb 5, 2021 | |
| Lorenzo Pasquini | Feb 5, 2021 | |
| Lorenzo Pasquini | Feb 5, 2021 | |
| Lorenzo Pasquini | Feb 5, 2021 | |
| Alfonso Nieto-Castanon | Feb 5, 2021 | |
| Lorenzo Pasquini | Feb 6, 2021 | |