If you do all the preprocessing yourself, then store the output in the run folder with a certain name, fmri-denoised.nii.gz, then when you run mkanalysis-sess specify -funcstem fmri-denoised and proceed as norm.
On 10/22/2018 04:08 PM, Zhi Li wrote: > > External Email - Use Caution > > Hi FreeSurfer Experts, > > I am trying surface-based analysis of task-fMRI with FS-FAST. However, > I would like to apply ICA-based denoising and wavelet-despiking which > can be not done with the 'preproc-sess'. I wonder if I can do the > preprocessing with other tools before registration with FS anatomical > and normalization? If it is available, how can I do it with command line? > > Another question is if can I use other template for parcellation > during using 'recon-all', such as the template of Human Connectome > Project? > > Looking forward to your kind reply. > > Thank you and best wishes, > > Zhi > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
