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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
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Hey ptaylor,
I have tried to use your script stated above to do a Z-standardization of ALFF-values in AFNI. I don't quite get if you use all images or just one here... I have adapted the script in the following way:
#!/bin/bash
PREPROC_DATA=/mypath/to/preprocessed/data
PROGS_DIR=/mypath/to/scripts
# generate a txt file with all datapaths of ALFF BRIK files calculated using 3dRSFC
by
melissaneuro
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AFNI Message Board
Hey,
I have looked into both codes (3dRSFC and DPABI's y_alff_falff.m, version 6.1).
I think the relevant line in DPABI y_alff_falff.m is 139:
AllVolume(:,Segment) = 2*abs(fft(AllVolume(:,Segment)))/sampleLength;
with AllVolume being the reshaped to 2D, masked, detrended, and zero-padded 4D input time series (Segment is an option to separate data into junks to be more RAM memory fri
by
melissaneuro
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AFNI Message Board
Hey,
I have removed the first 5 volumes, have applied slice time correction, and have processed the data with Pestica/Slomoco (version 5) to correct for physiological cardiac and respiratory noise and motion. I have also normalized the data to MNI152 using FSL's flirt and fnirt. For ALFF calculation in AFNI, I have not used the -nodetrend flag but I will definitely try that, thank you!
I
by
melissaneuro
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AFNI Message Board
Dear AFNI-users,
I am using 3dRSFC to calculate f/ALFF on rsfMRI data preprocessed with Pestica/Slomoco in the following way:
slomoco=${SLOMOCO_DIR}/subject.slicemocoxy_afni.slomoco.pestica_standard.nii,gz
3dRSFC -input $slomoco -prefix RSFC -band 0.01 0.08 -mask striatum.nii.gz -overwrite
I have also calculated in DPABI v5.1 but the results are completely different.
Did I forget so
by
melissaneuro
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AFNI Message Board