-
- ASLprep reuses the anatomical derivatives from fMRIPrep output
-
- Run
datalad install
to make a copy of the fMRIPrep output:code/datalad_install_dataset.sh
- Rename files and modify folder hierarchy:
code/datalad_rename_dataset.sh
datalad unlock
the dataset- Run
rename.ul
datalad save
the changes
- Run
-
- Create a json file describing custom BIDS input filters:
code/aslprep_filter.json
- To only include baseline T1w and ASL scans
- Run the bash script:
code/run_tay_aslprep.sh
- Submit SLURM jobs
- Use output spaces
MNI152NLin2009cAsym
andasl
- Set
--smooth_kernel
to0
- Set
--m0_scale
to100
- Include
--bids-filter-file
,--anat-derivatives
,[--skip_bids_validation
- Create a json file describing custom BIDS input filters:
-
- QC file:
sub-CMH*/ses-01/perf/*desc-quality_control_cbf.csv
- QC file:
-
- Havard Oxford atlas:
sub-CMH*/ses-01/perf/*desc-HavardOxford_mean_cbf.csv
- Havard Oxford atlas:
Ghazaleh Ahmadzadeh