The session folder sub-[ID]_ses-[V0X]_scans.tsv files include the following fields relevant to QC (other fields, such as filename, site, etc. not shown below).
| Field | Description |
|---|---|
part_of_a_pair |
Whether the DWI file is part of a pair |
loris_qc_status |
Pass/Fail mapping from UCSD QC JSON file |
loris_selected |
Whether file is selected for further processing |
bad_philips_exam_card_values |
Whether the QALAS exam card used for acquisition was incorrect |
nrev |
Number of manual QC reviewers |
revdisp |
If there was disparity/disagreement between reviewers |
QC |
Overall manual QC score: 1 (pass), 0 (fail). Note: scans with only automated, and not manual, QC performed have a QC field value of 1 |
notes |
Optional notes from manual QC review |
QU_motion |
Qualitative manual QC score for motion (sMRI & qMRI) |
QU_sus |
Qualitative manual QC score for susceptibility artifact (dMRI, fMRI, & field maps) |
QU_cutoff |
Qualitative manual QC score for FOV cutoff artifact (dMRI, fMRI, & field maps) |
QU_line |
Qualitative manual QC score for line artifact (dMRI, fMRI, & field maps) |
line_nframes |
Number of frames with line artifacts |
line_{max|mean}_{score|count} |
Maximum/Mean line artifact score/count across frames |
cutoff |
Sum of dorsal and ventral cutoff scores |
{dorsal|ventral}_cutoff |
Dorsal/Ventral cutoff score |
brain_{mean|std|SNR} |
Mean/SD/SNR of image intensity within brain mask |
brain_{min|max|median} |
Minimum/Maximum/Median image intensity within brain mask |
brain_tSNR_{mean|median|std} |
Mean/Median/Standard deviation of temporal SNR in brain mask |
mean_{motion|trans|rot} |
Average framewise displacement/translation/rotation (mm) |
max_{dx|dy|dz|rx|ry|rz} |
Maximum absolute x/y/z translation (d)/rotation (r) (mm) |
subthresh_{02|03|04} |
Number of seconds with framewise displacement less than 0.2/0.3/0.4 mm |
aqc_motion |
Automated QC motion score for sMRI |
nreps |
Number of repetitions / frames |
brainvol |
Volume of brain mask (mm^3) |
fwhm_x |
Full width half max spatial smoothness in x-axis (left-right) |
b0_{median|std} |
Median/Standard Deviation b=0 intensity in brain mask |
DTerr_{mean|median|std} |
Mean/Median/STD across frames of RMS residual error relative to RMS signal in brain voxels |
Completed |
Whether series has the expected number of files |
NumberOfFiles |
Number of DICOM files |
HBCD_compliant |
Whether series passes minimal protocol compliance check |
AdditionalInfo |
Notes on classification and protocol compliance |
MD_std |
Standard deviation of mean diffusivity in brain mask |
b0_mean |
Average b=0 intensity in brain mask |
FA_std |
Standard deviation of fractional anisotropy in brain mask |
MD_{mean|median} |
Mean/Median MD (mean diffusivity) in brain mask |
max_nbad_frames_per_{slice|frame} |
Maximum number of outlier frames per slice/frame |
FA_{mean|median} |
Mean/Median fractional anisotropy in brain mask |
fwhm_z |
Full width half max spatial smoothness in z-axis (inferior-superior) |
nbad_frame_slices |
Number of outlier frame-slices (dMRI) |
nbad_{frames|slices} |
Number of frames/slices with outlier slices/frames (dMRI) |
fwhm_y |
Full width half max spatial smoothness in y-axis (anterior-posterior) |
qc_status |
Whether review is pending, complete, or has other status |
ngood_frames |
Number of frames without outlier slices (dMRI) |
censor_thresh |
Threshold used for censoring outlier slices (dMRI) |
nframes_b{0|500|1000|2000|3000} |
Number of frames (b = 0-3000) |
nbad_frame_slices_b{0|500|1000|2000|3000} |
Number of outlier frame-slices for dMRI b = 0-3000 frames |
nbad_{frames|slices}_b{0|500|1000|2000|3000} |
Number of frames/slices with outlier slices/frames for dMRI b=x frames |
ngood_frames_b{0|500|1000|2000|3000} |
Number of frames without outlier slices for dMRI b = 0-3000 frames |
FWHM{x|y|z}_b{0|500|1000|2000|3000} |
FWHM spatial smoothness in x/y/z-axis (L-R/A-P/I-S) for b = 0-3000 frames |
tSNR_b{0|500|1000|2000|3000} |
Median temporal SNR in brain mask for for b = 0-3000 frames |
{DT|RSI}err_rel_b{0|500|1000|2000|3000} |
Median DTI/RSI RMS for b = 0-3000 frames across voxels relative to within-voxel RMS b=0 signal |
{DT|RSI}err_rel |
Median of DTI/RSI RMS for all frames across voxels relative to within-voxel RMS signal |
NumberOfFilesMissing |
Number of DICOM files apparently missing (based on gaps in InstanceNumbers) |
Num{Head|Neck|Spine}CoilElem |
Number of head/neck/spine coil elements |
brain_{n|f}vox_max |
Number/Fraction of voxels within brain mask at maximum image intensity |
nonbrain_{mean|std|snr} |
Mean/Standard deviation/Signal-to-noise ratio (mean/stdev) image intensity outside brain mask
|
NumberOfFilesOrig |
Number of DICOM files received (before excluding non-image, corrupt, or extra files) |
NumberOfFilesExtra |
Number of extra DICOM files received (non-image, corrupt, or extra files) |
NumberOfFilesValid |
Number of DICOM files received (after excluding non-image corrupt or extra files, but before excluding files from final partial frame)
|
brain_entropy |
Entropy score of voxels within brain mask |
qc_selection |
Whether the series is selected for manual QC |
auto_qc_score |
Automated QC score of 1 (pass) or 0 (fail) |
auto_qc_notes |
Reason for automated QC failure |