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biac:analysis:topup_correction [2019/09/04 17:45] cmp12 |
biac:analysis:topup_correction [2021/08/24 16:04] cmp12 |
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For scenario 1, create your blip up / blip down B0 data the same way as above. | For scenario 1, create your blip up / blip down B0 data the same way as above. | ||
< | < | ||
- | bxhselect --timeselect 0 bi | + | bxhselect --timeselect 0 bia6_00197_012.bxh bu |
- | a6_00197_012.bxh bu | + | |
bxhselect --timeselect 0 bia6_00197_013.bxh bd | bxhselect --timeselect 0 bia6_00197_013.bxh bd | ||
fslmerge -t bud bu.nii.gz bd.nii.gz | fslmerge -t bud bu.nii.gz bd.nii.gz | ||
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< | < | ||
- | dwipre | + | dwifslpreproc |
- | proc dwi.mif dwi_corr.mif -rpe_pair -se_epi bud.nii.gz -pe_dir AP -readout_time 0.10656 | + | |
-rpe_pair specifies you're providing a pair of B0s ( regular, reversed ) | -rpe_pair specifies you're providing a pair of B0s ( regular, reversed ) | ||
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dwipreproc dwi.mif dwi_corr.mif -rpe_all -pe_dir AP -readout_time 0.10656 -debug | dwipreproc dwi.mif dwi_corr.mif -rpe_all -pe_dir AP -readout_time 0.10656 -debug | ||
- | -rpe_all signals that you've replicated | + | - rpe_all signals that you've replicated |
- | A | + | - pe_dir is the phase encode direction of your regular acquisition |
- | LL the directions with a rpe acquisition | + | - readout_time from above |
- | -pe_dir is the phase encode direction of your regular acquisition | + | |
- | -readout_time from above | + | |
</ | </ | ||