Help with HBCD data dictionary for MRIQC output

[LuciMoore]

What would you like changed/added and why?

We are creating data dictionaries for the MRIQC outputs to be included in the HBCD data release. Can you confirm that the labels for the following outputs are correct? The main ones I'm unsure of are size_t and spacing_* for BOLD.

BOLD:

Measure	Label
aor	AFNI’s Outlier Ratio
aqi	AFNI’s Outlier Index
dummy_trs	Non-Steady State Volumes
dvars_nstd	Temporal Derivative (D) Root Mean Square Variance (VARS)
dvars_std	DVARS Normalized With SD of Temporal Difference Time Series
dvars_vstd	DVARS With Voxel-Wise Standardization
efc	Entropy-Focus Criterion
fber	Foreground-Background Energy Ratio
fd_mean	Framewise Displacement Mean
fd_num	Number of Timepoints Above Framewise Displacement Threshold
fd_perc	Percent of Timepoints Values Above Framewise Displacement Threshold
fwhm_avg	Full Width Half Maximum Smoothness
fwhm_x	Full Width Half Maximum in X Direction
fwhm_y	Full Width Half Maximum in Y Direction
fwhm_z	Full Width Half Maximum in Z Direction
gcor	Global Correlation
gsr_x	Ghost to Signal Ratio in X Direction
gsr_y	Ghost to Signal Ratio in Y Direction
size_t	Number of Frames
size_x	Size Along X Dimension
size_y	Size Along Y Dimension
size_z	Size Along Z Dimension
snr	Signal-To-Noise Ratio
spacing_tr	Echo Spacing
spacing_x	Echo Spacing X Dimension
spacing_y	Echo Spacing Y Dimension
spacing_z	Echo Spacing Z Dimension
summary_bg_k	Summary Background Kurtosis
summary_bg_mad	Summary Background Mean Absolute Deviation
summary_bg_mean	Summary Background Mean
summary_bg_median	Summary Background Median
summary_bg_n	Summary Background Number of Voxels
summary_bg_p05	Summary Background 5% Percentile
summary_bg_p95	Summary Background 95% Percentile
summary_bg_stdv	Summary Background Standard Deviation
summary_fg_k	Summary Foreground Kurtosis
summary_fg_mad	Summary Foreground Mean Absolute Deviation
summary_fg_mean	Summary Foreground Mean
summary_fg_median	Summary Foreground Median
summary_fg_n	Summary Foreground Number of Voxels
summary_fg_p05	Summary Foreground 5% Percentile
summary_fg_p95	Summary Foreground 95% Percentile
summary_fg_stdv	Summary Foreground Standard Deviation
tsnr	Temporal Signal-to-Noise Ratio

T1/2W:

Measure	Label
cjv	Coefficient of Joint Variation
cnr	Contrast-to-Noise Ratio
efc	Entropy Focus Criterion
fber	Foreground-Background Energy Ratio
fwhm_avg	Full Width Half Maximum Smoothness
fwhm_x	Full Width Half Maximum in X Direction
fwhm_y	Full Width Half Maximum in Y Direction
fwhm_z	Full Width Half Maximum in Z Direction
icvs_csf	Intracranial CSF Volume Fraction
icvs_gm	Intracranial GM Volume Fraction
icvs_wm	Intracranial WM Volume Fraction
inu_med	Intensity Non-Uniformity Median
inu_range	Intensity Non-Uniformity Range
qi_1	Quality Index 1
qi_2	Quality Index 2
rpve_csf	Residual Partial Voluming Error - CSF
rpve_gm	Residual Partial Voluming Error - GM
rpve_wm	Residual Partial Voluming Error - WM
size_x	Size X Dimension
size_y	Size Y Dimension
size_z	Size Z Dimension
snr_csf	Signal-to-Noise Ratio CSF
snr_gm	Signal-to-Noise Ratio GM
snr_total	Signal-to-Noise Ratio Total
snr_wm	Signal-to-Noise Ratio WM
snrd_csf	Dietrich’s Signal-to-Noise Ratio CSF
snrd_gm	Dietrich’s Signal-to-Noise Ratio GM
snrd_total	Dietrich’s Signal-to-Noise Ratio Total
snrd_wm	Dietrich’s Signal-to-Noise Ratio WM
spacing_x	Spacing X Dimension
spacing_y	Spacing Y Dimension
spacing_z	Spacing Z Dimension
summary_bg_k	Summary Background Kurtosis
summary_bg_mad	Summary Background Mean Absolute Deviation
summary_bg_mean	Summary Background Mean
summary_bg_median	Summary Background Median
summary_bg_n	Summary Background Number of Voxels
summary_bg_p05	Summary Background 5% Percentile
summary_bg_p95	Summary Background 95% Percentile
summary_bg_stdv	Summary Background Standard Deviation
summary_csf_k	Summary CSF Kurtosis
summary_csf_mad	Summary CSF Mean Absolute Deviation
summary_csf_mean	Summary CSF Mean
summary_csf_median	Summary CSF Median
summary_csf_n	Summary CSF Number of Voxels
summary_csf_p05	Summary CSF 5% Percentile
summary_csf_p95	Summary CSF 95% Percentile
summary_csf_stdv	Summary CSF Standard Deviation
summary_gm_k	Summary GM Kurtosis
summary_gm_mad	Summary GM Mean Absolute Deviation
summary_gm_mean	Summary GM Mean
summary_gm_median	Summary GM Median
summary_gm_n	Summary GM Number of Voxels
summary_gm_p05	Summary GM 5% Percentile
summary_gm_p95	Summary GM 95% Percentile
summary_gm_stdv	Summary GM Standard Deviation
summary_wm_k	Summary WM Kurtosis
summary_wm_mad	Summary WM Mean Absolute Deviation
summary_wm_mean	Summary WM Mean
summary_wm_median	Summary WM Median
summary_wm_n	Summary WM Number of Voxels
summary_wm_p05	Summary WM 5% Percentile
summary_wm_p95	Summary WM 95% Percentile
summary_wm_stdv	Summary WM Standard Deviation
tpm_overlap_csf	Tissue Probability Map Overlap CSF
tpm_overlap_gm	Tissue Probability Map Overlap GM
tpm_overlap_wm	Tissue Probability Map Overlap WM
wm2max	Maximum White Matter Intensity

Do you have any interest in helping improve the documentation?

No

Do you have any suggestions for the new documents?

No response

[oesteban]

These are wrong (you have them right for the T1w/T2w):

spacing_tr Echo Spacing -> Repetition Time (TR)
spacing_x Echo Spacing X Dimension -> Voxel size X (in mm)
spacing_y Echo Spacing Y Dimension -> Voxel size Y (in mm)
spacing_z Echo Spacing Z Dimension -> Voxel size Z (in mm)

[LuciMoore]

thank you! I've updated these