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help > CONN denoise output
Feb 9, 2021 12:02 AM | Lorenzo Pasquini - Klinikum rechts der Isar Technische Universitaet Muenchen
CONN denoise output
dear Alfonso and other CONN users,
I am really perplexed by what is going on here.
For whatever reason the denoised output from the CONN_modules (first row in screenshot) and CONN GUI (second row) do not correspond.
The outputs are very different in terms of distributions (histograms) and spatial patterns (masked to skull stripped brain).
I also regressed out the covariates manually using fsl_glm and these maps look again pretty different.
Below an extract for the code used to generate the bdswuaf.nii:
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])
Is the effect of rest and detrending implemented in the default
conn_module available online?
Any idea on what I may be doing wrong?
Any help would be greatly appreciated.
Thanks
Lorenzo
I am really perplexed by what is going on here.
For whatever reason the denoised output from the CONN_modules (first row in screenshot) and CONN GUI (second row) do not correspond.
The outputs are very different in terms of distributions (histograms) and spatial patterns (masked to skull stripped brain).
I also regressed out the covariates manually using fsl_glm and these maps look again pretty different.
Below an extract for the code used to generate the bdswuaf.nii:
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])
Any idea on what I may be doing wrong?
Any help would be greatly appreciated.
Thanks
Lorenzo
Threaded View
Title | Author | Date |
---|---|---|
Lorenzo Pasquini | Feb 9, 2021 | |
Alfonso Nieto-Castanon | Feb 9, 2021 | |
Lorenzo Pasquini | Feb 9, 2021 | |