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MRI: DWI scanner derivatives: Adopt "S0map" suffix
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Lestropie committed Aug 12, 2024
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10 changes: 6 additions & 4 deletions src/modality-specific-files/magnetic-resonance-imaging-data.md
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Expand Up @@ -671,7 +671,7 @@ The definitions of these fields can be found in
and a guide for using macros can be found at
https://github.com/bids-standard/bids-specification/blob/master/macros_doc.md
-->
{{ MACROS___make_suffix_table(["ADC", "expADC", "trace", "FA", "colFA"]) }}
{{ MACROS___make_suffix_table(["ADC", "expADC", "trace", "FA", "colFA", "S0"]) }}

<!--
This block generates a filename templates.
Expand Down Expand Up @@ -700,9 +700,11 @@ In such a case, two files could have the following names:
The user is free to choose any other label than `singleband` and
`multiband`, as long as they are consistent across subjects and sessions.

Scanner-generated trace-weighted, ADC, exponentiated ADC, and fractional anisotropy (FA and colFA) volumes
MAY be included using the `trace`, `ADC`, `expADC`, `FA` and `colFA` suffixes, respectively.
If trace, ADC, expADC, FA, or colFA volume filenames match a diffusion series with all applicable entities,
Scanner-generated derivative images,
such as trace-weighted, ADC, exponentiated ADC,
fractional anisotropy (FA and colFA), and estimated unweighted signal intensity,
MAY be included using the `trace`, `ADC`, `expADC`, `FA`, `colFA` and `S0` suffixes, respectively.
If trace, ADC, expADC, FA, colFA, or S0 volume filenames match a diffusion series with all applicable entities,
such volumes SHOULD have been computed from that series.
Otherwise, some entity, such as [`acq-<label>`](../appendices/entities.md#acq),
SHOULD be used to indicate that the files are unrelated.
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9 changes: 8 additions & 1 deletion src/schema/objects/suffixes.yaml
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Expand Up @@ -292,16 +292,23 @@ RB1map:
unit: arbitrary
S0map:
value: S0map
display_name: Observed signal amplitude (S0) image
display_name: Projected baseline signal amplitude (S0) image
description: |
In arbitrary units (arbitrary).
This represents a model-based estimate of signal intensity
in the absence of the contrast under investigation.
For a multi-echo (typically fMRI) sequence, S0 maps index the baseline signal
before exponential (T2-star) signal decay.
In other words: the exponential of the intercept for a linear decay model
across log-transformed echos. For more information, please see, for example,
[the tedana documentation](https://tedana.readthedocs.io/en/latest/\
approach.html#monoexponential-decay-model-fit).
S0 maps are RECOMMENDED to use this suffix if derived from an ME-FMRI dataset.
For a diffusion-weighted sequence,
S0 maps represent the model-based estimate of the signal intensity
in the absence of any diffusion weighting;
in other words, the image intensity at *b*=0
as estimated by a diffusion model fit.
SEM:
value: SEM
display_name: Scanning electron microscopy
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1 change: 1 addition & 0 deletions src/schema/rules/files/raw/dwi.yaml
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Expand Up @@ -44,6 +44,7 @@ ScannerDerivatives:
suffixes:
- ADC
- FA
- S0map
- colFA
- expADC
- trace
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