post_fmriprep.yaml

tr: 1.0
#log_file: "post_fmriprep.log"
log_file: "{proc_files$prefix}_post_fmriprep.log"
overwrite: FALSE
keep_intermediates: FALSE

spatial_smooth:
  prefix: "s"
  fwhm_mm: 6

apply_aroma:
  prefix: "a"

temporal_filter:
  prefix: "f"
  low_pass_hz: 0
  high_pass_hz: 0.008333333 # 1/120

intensity_normalize:
  prefix: "n"
  global_median: 10000

confound_regression:
  prefix: "r"
  columns: [ "csf", "csf_derivative1", "white_matter", "white_matter_derivative1" ]
  noproc_columns: [ ]
  output_file: "{proc_files$prefix}_confound_regressors.txt"

confound_calculate:
  compute: TRUE # will extract these confounds and filter to match fMRI data if TRUE
  columns: [ "csf", "csf_derivative1", "white_matter", "white_matter_derivative1" ]
  noproc_columns: [ "framewise_displacement" ] # no AROMA or filter, just copy
  output_file: "{proc_files$prefix}_postprocessed_confounds.txt"

processing_sequence: [
  "spatial_smooth",
  "apply_aroma",
  "temporal_filter",
  "intensity_normalize"
  ]