Complete input features for certain commands

axiezai / pipetography

Nipype and tractography!

https://axiezai.github.io/pipetography/

Apache License 2.0

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Complete input features for certain commands #3

Open axiezai opened 4 years ago

axiezai commented 4 years ago

All commands should have adequate inputs now, but some are missing full functionality

axiezai commented 4 years ago

Add rpe-pair and rpe-all conditions

axiezai commented 4 years ago

rpe-all added 266850d511f6168f4ef83a70bea418380579546d

axiezai commented 2 years ago

Add fslreorient2std for datasets saved in non-fsl compatible coordinate systems

axiezai commented 2 years ago

add gradient check and re-export gradients after reorienting DWI: https://community.mrtrix.org/t/reorienting-dwi-data-and-bvecs/5266

axiezai commented 2 years ago

implement rpe_pair.

$ mrcat b0_ap.mif b0_pa.mif b0_pair.mif -axis 3; dwifslpreproc DWI_in.mif DWI_out.mif -rpe_pair -se_epi b0_pair.mif -pe_dir ap -readout_time 0.72 -align_seepi

See rob's comment here: https://community.mrtrix.org/t/dwipreproc-register-fieldmap-to-dwi-other-questions/621/4