The precise process in the FIX pipelines is hopefully clear upon reviewing https://github.com/Washington-University/Pipelines/blob/master/ICAFIX/hcp_fix.for_fix1.06a (including the FIX subfunctions that it calls).
If you started from a different starting point than the hcp_fix script, there are a few candidate reasons why your results might not match the released FIX packages. - read in different motion parameter file - did not use 2000s highpass filter on data and on motion parameters - ran your own MELODIC, instead of using the MELODIC ICA output in the FIX extended packages (I believe that the FIX scripts re-run / overwrite MELODIC by default) If these don’t seem to be the issue, it might help to know a bit more about how the two outputs actually differ. (e.g., Is the difference within machine precision?) --Greg ____________________________________________________________________ Greg Burgess, Ph.D. Staff Scientist, Human Connectome Project Washington University School of Medicine Department of Psychiatry Phone: 314-362-7864 Email: gburg...@wustl.edu > On Sep 16, 2016, at 12:17 PM, Ely, Benjamin <benjamin....@mssm.edu> wrote: > > Hi all, > > I ran a test recently comparing "aggressive" vs. "soft" denoising in MELODIC > on an HCP resting-state run, regressing out the "bad" components found in the > rfMRI_REST1_LR_hp2000.ica/.fix file (I believe the location of this info is > different in the newer release but I'm working off HCP500 data). Both > denoising methods gave similar results which also looked similar to the > released HCP ICA-FIX denoised timeseries (i.e. > rfMRI_REST1_LR_hp2000_clean.nii.gz), but I expected the soft denoised MELODIC > output to be identical, which it was not. Is there a step I'm missing, or did > you run the ICA component regression with a different tool? > > Thank you! > -Ely > _______________________________________________ > HCP-Users mailing list > HCP-Users@humanconnectome.org > http://lists.humanconnectome.org/mailman/listinfo/hcp-users > ________________________________ The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail. _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
