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PennLINC / aslprep

Preprocessing of arterial spin labeling (ASL) data
https://aslprep.readthedocs.io
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Test datasets have bugs #345

Closed tsalo closed 12 months ago

tsalo commented 1 year ago

Summary

  1. The dataset_description.jsons for test_001, test_002, and test_003 are all fMRIPrep ones that say the datasets are "derivatives", which is incorrect.
  2. PhaseEncodingDirection appears to be missing for most, if not all, of the datasets' ASL files, which prevents me from testing SyN.
  3. None of the datasets have field maps.
  4. None of the datasets have reverse phase-encoded M0 scans to be used for PEPOLAR-style distortion correction.
tsalo commented 1 year ago

The Philips M0 scan has values of zero for some in-mask voxels, which, when used to calculate CBF, results in Infs. This could be a bug in ASLPrep, so it's definitely important to investigate.

tsalo commented 1 year ago

At least some PNC subjects have field maps, so maybe I could repurpose one as a test dataset.

tsalo commented 12 months ago

I fixed most, if not all, of the problems in the last few days.