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MH reports that putting images from J-SENSE recon code output
https://sigpy.readthedocs.io/en/latest/generated/sigpy.mri.app.JsenseRecon.html#sigpy.mri.app.JsenseRecon
into mri_field_map_reg.m causes amplification of pixels outside the head in this line:
mirt/mri/fieldmap/mri_field_map_reg.m
Line 96 in 43b20b5
| [yik yi2] = mri_field_map_reg_scale(yik, etime, arg.fmax); |
mirt/mri/fieldmap/mri_field_map_reg.m
Line 148 in 43b20b5
| function [yik yi2] = mri_field_map_reg_scale(yik, etime, fmax) |
Masking the fieldmaps (using ESPIRT masks) addressed the issue.
Fixing this is a low priority because I recommend using this code instead anyway:
https://github.com/ClaireYLin/regularized-field-map-estimation
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