aslprep.workflows.asl.base module
Preprocessing workflows for ASL data.
- init_asl_preproc_wf(asl_file)[source]
Perform the functional preprocessing stages of ASLPrep.
- Workflow Graph
- Parameters:
asl_file – asl series NIfTI file
- Inputs:
asl_file – asl series NIfTI file
t1w_preproc – Bias-corrected structural template image
t1w_mask – Mask of the skull-stripped template image
t1w_dseg – Segmentation of preprocessed structural image, including gray-matter (GM), white-matter (WM) and cerebrospinal fluid (CSF)
t1w_tpms – List of tissue probability maps in T1w space
template – List of templates to target
anat2std_xfm – List of transform files, collated with templates
std2anat_xfm – List of inverse transform files, collated with templates
- Outputs:
asl_t1 – asl series, resampled to T1w space
asl_mask_t1 – asl series mask in T1w space
asl_std – asl series, resampled to template space
asl_mask_std – asl series mask in template space
confounds – TSV of confounds
cbf_t1 – cbf times series in T1w space
meancbf_t1 – mean cbf in T1w space
scorecbf_t1 – scorecbf times series in T1w space
avgscorecbf_t1 – mean score cbf in T1w space
scrub_t1, pv_t1, basil_t1 – scrub, parital volume corrected and basil cbf in T1w space
cbf_std – cbf times series in template space
meancbf_std – mean cbf in template space
scorecbf_std – scorecbf times series in template space
avgscorecbf_std – mean score cbf in template space
scrub_std, pv_std, basil_std – scrub, parital volume corrected and basil cbf in template space
qc_file – quality control meausres
Notes
Brain-mask T1w.
Generate ASL reference image. I think this is just the BOLD reference workflow from niworkflows, without any modifications for ASL data. I could be missing something.
Slice-timing correction.
Motion correction.
Register ASL to T1w.
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