SEPIA Output Files¶
Output files of Total field reconvery and phase unwrapping¶
Data | Description |
---|---|
<Prefix>_fieldmap.nii.gz | Unwrapped total frequency shift map in Hz. |
<Prefix>_weights.nii.gz | SNR-weighted image derived from standard deviation of noise in phase data. |
<Prefix>_noisesd.nii.gz | Estimated standard deviation of noise in the phase data. |
<Prefix>_part-phase_rad.nii.gz | Wrapped phase data in radian (only if the input data contains voxel exceeds the range of [-pi,pi]). |
<Prefix>_part-phase_unwrapped.nii.gz | Unwrapped phase data in radian (if selected). |
<Prefix>_part-phase_reverse.nii.gz | inverted phase data, = -(phase) |
<Prefix>_part-phase_bipolarcorr.nii.gz | phase data corrected for bipolar readout gradient |
<Prefix>_mask_brain.nii.gz | Brain mask derived from brain extraction of FSL (if selected). |
<Prefix>_mask_localfield.nii.gz | Signal mask for background field removal step (if voxel exclusion is selected with ‘Brain mask’ option). |
<Prefix>_relativeresidual.nii.gz | Relative residual derived using mono-exponential model with a single frequency shift (if voxel exclusion is selected). |
<Prefix>_mask_reliable.nii.gz | Derived from thresholding relative-residual map using user-defined value. |
Output files of Background field removal¶
Data | Description |
---|---|
<Prefix>_localfield.nii.gz | Local (tissue) field map in Hz. |
<Prefix>_mask_QSM.nii.gz | Signal mask for QSM step. |
Output files of QSM dipole inversion¶
Data | Description |
---|---|
<Prefix>_Chimap.nii.gz | Magnetic susceptibility map in ppm. |
<Prefix>_mask_referenceregion.nii.gz | Reference region used in QSM normalisation (if selected). |
Other output files¶
Data | Description |
---|---|
sepia_config.m | Automatic generated script by the GUI of SEPIA containing all user specified parameters. |
run_sepia.log | Event log file of the Matlab’s command window output. |
run_sepia.error | Error message of SEPIA (if any). |
Output files of SWI/SMWI¶
Data | Description |
---|---|
<Prefix>_swi-phase.nii.gz | High-pass filtered phase data. |
<Prefix>_swi-positive.nii.gz | Positive susceptibility-weighted images (if selected). |
<Prefix>_swi-mIP-positive.nii.gz | Positive susceptibility-weighted images with minimum intensity projection over user-defined field of view (if selected). |
<Prefix>_swi-negative.nii.gz | Negative susceptibility-weighted images (if selected). |
<Prefix>_swi-mIP-negative.nii.gz | Negative susceptibility-weighted images with minimum intensity projection over user-defined field of view (if selected). |
<Prefix>_smwi-paramagnetic.nii.gz | Paramagnetic susceptibility map-weighted images (if selected). |
<Prefix>_smwi-mIP-paramagnetic.nii.gz | Paramagnetic susceptibility map-weighted images with minimum intensity projection over user-defined field of view (if selected). |
<Prefix>_smwi-diamagnetic.nii.gz | iamagnetic susceptibility map-weighted images (if selected). |
<Prefix>_smwi-mIP-diamagnetic.nii.gz | Diamagnetic susceptibility map-weighted images with minimum intensity projection over user-defined field of view (if selected). |