biac:analysis:topup_correction
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biac:analysis:topup_correction [2019/02/22 14:03] – cmp12 | biac:analysis:topup_correction [2019/02/22 14:51] – cmp12 | ||
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there are 2 scenarios that typically apply here | there are 2 scenarios that typically apply here | ||
- | 1) a short acquisition with RPE B0s | + | 1) DWI and a short acquisition with RPE B0s |
- | 2) an entire | + | 2) 2 entire |
In both scenarios it is important to create your data with normal phase encoding direction first, followed by reversed. | In both scenarios it is important to create your data with normal phase encoding direction first, followed by reversed. | ||
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==== Prepare your input datasets ==== | ==== Prepare your input datasets ==== | ||
+ | |||
+ | Specify that a set of images (typically b=0 volumes) will be provided for use in inhomogeneity field estimation only | ||
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. | ||
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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 |
+ | LL the directions with a rpe acquisition | ||
-pe_dir is the phase encode direction of your regular acquisition | -pe_dir is the phase encode direction of your regular acquisition | ||
-readout_time from above | -readout_time from above | ||
</ | </ | ||
+ | |||
+ | {{ : | ||
biac/analysis/topup_correction.txt · Last modified: 2024/06/21 15:44 by 127.0.0.1