dmriprep
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nipy
MOVED TO https://github.com/nipreps/dmriprep
the HBN fieldmap files aren't consistently in BIDS format -- for the files where we have to read the .json file to figure out the fieldmap direction, we need to...
Two kinds of use-cases: - Acquisition protocols that don't include T1w. - Individual cases within a protocol that don't have that data (e.g., when the quality of the T1 is...
https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/eddyqc/UsersGuide
Or check the hash of pre-existing files to confirm that they match what's on S3.
a la MRI QC, so that we can provide QC information relative to a norm.
we need to add anatomical processing if freesurfer hasn't been run. Let's use the same one as fmriprep: https://github.com/poldracklab/fmriprep/blob/master/fmriprep/workflows/base.py#L409-L466
Plot the number of outliers per volume. This way the user can set a threshold to remove volumes with a lot of outliers
For the QC image of the RGB map it would be helpful to also have a small white line showing the direction vector of the PDD taken from the tensor
We want to produce an image of the DTI ellipsoids around the posterior corpus callosum in a horizontal section. If these are pointing orthogonal to the posterior callosum, rather than...