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arokemarokem
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Move the desc- entity to the end of the file name.
See bids-standard/bids-specification#1895
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‎src/derivatives/05-diffusion-derivatives.md

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@@ -54,12 +54,12 @@ that warrant explicit mention due to their consequence in how they are represent
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<pipeline_name>/
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sub-<participant_label>/
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dwi/
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<source_keywords>[_space-<space>]_model-<label>[_desc-<desc>]_param-<label1>_dwimap.nii[.gz]
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<source_keywords>[_space-<space>]_model-<label>[_desc-<desc>]_param-<label1>_dwimap.json
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<source_keywords>[_space-<space>]_model-<label>[_desc-<desc>]_param-<label2>_dwimap.nii[.gz]
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<source_keywords>[_space-<space>]_model-<label>[_desc-<desc>]_param-<label2>_dwimap.json
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<source_keywords>[_space-<space>]_model-<label>[_desc-<desc>]_param-<label3>_dwimap.nii[.gz]
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<source_keywords>[_space-<space>]_model-<label>[_desc-<desc>]_param-<label3>_dwimap.json
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<source_keywords>[_space-<space>]_model-<label>_param-<label1>[_desc-<desc>]_dwimap.nii[.gz]
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<source_keywords>[_space-<space>]_model-<label>_param-<label1>[_desc-<desc>]_dwimap.json
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<source_keywords>[_space-<space>]_model-<label>_param-<label2>[_desc-<desc>]_dwimap.nii[.gz]
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<source_keywords>[_space-<space>]_model-<label>_param-<label2>[_desc-<desc>]_dwimap.json
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<source_keywords>[_space-<space>]_model-<label>_param-<label3>[_desc-<desc>]_dwimap.nii[.gz]
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<source_keywords>[_space-<space>]_model-<label>_param-<label3>[_desc-<desc>]_dwimap.json
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```
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- Files "`<source_keywords>_model-<label>_param-<label*>_dwimap.nii[.gz]`"
@@ -572,41 +572,41 @@ A guide for using macros can be found at
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"bedpostx_pipeline": {
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"sub-01": {
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"dwi": {
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"sub-01_model-bs_desc-mean_param-s0_dwimap.nii.gz": "",
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"sub-01_model-bs_desc-mean_param-s0_dwimap.json": "",
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"sub-01_model-bs_desc-mean_param-polar_dwimap.nii.gz": "",
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"sub-01_model-bs_desc-mean_param-polar_dwimap.json": "",
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"sub-01_model-bs_desc-mean_param-vector_dwimap.nii.gz": "",
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"sub-01_model-bs_desc-mean_param-vector_dwimap.json": "",
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"sub-01_model-bs_desc-mean_param-vf_dwimap.nii.gz": "",
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"sub-01_model-bs_desc-mean_param-vf_dwimap.json": "",
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"sub-01_model-bs_desc-mean_param-vfsum_dwimap.nii.gz": "",
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"sub-01_model-bs_desc-mean_param-vfsum_dwimap.json": "",
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"sub-01_model-bs_desc-mean_param-diffusivity_dwimap.nii.gz": "",
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"sub-01_model-bs_desc-mean_param-diffusivity_dwimap.json": "",
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"sub-01_model-bs_desc-mean_param-dstd_dwimap.nii.gz": "",
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"sub-01_model-bs_desc-mean_param-dstd_dwimap.json": "",
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"sub-01_model-bs_desc-merged_param-polar_dwimap.nii.gz": "",
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"sub-01_model-bs_desc-merged_param-polar_dwimap.json": "",
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"sub-01_model-bs_desc-merged_param-vf_dwimap.nii.gz": "",
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"sub-01_model-bs_desc-merged_param-vf_dwimap.json": "",
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"sub-01_model-bs_param-s0_desc-mean_dwimap.nii.gz": "",
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"sub-01_model-bs_param-s0_desc-mean_dwimap.json": "",
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"sub-01_model-bs_param-polar_desc-mean_dwimap.nii.gz": "",
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"sub-01_model-bs_param-polar_desc-mean_dwimap.json": "",
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"sub-01_model-bs_param-vector_desc-mean_dwimap.nii.gz": "",
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"sub-01_model-bs_param-vector_desc-mean_dwimap.json": "",
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"sub-01_model-bs_param-vf_desc-mean_dwimap.nii.gz": "",
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"sub-01_model-bs_param-vf_desc-mean_dwimap.json": "",
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"sub-01_model-bs_param-vfsum_desc-mean_dwimap.nii.gz": "",
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"sub-01_model-bs_param-vfsum_desc-mean_dwimap.json": "",
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"sub-01_model-bs_param-diffusivity_desc-mean_dwimap.nii.gz": "",
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"sub-01_model-bs_param-diffusivity_desc-mean_dwimap.json": "",
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"sub-01_model-bs__param-dstd_desc-mean_dwimap.nii.gz": "",
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"sub-01_model-bs__param-dstd_desc-mean_dwimap.json": "",
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"sub-01_model-bs_param-polar_desc-merged_dwimap.nii.gz": "",
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"sub-01_model-bs_param-polar_desc-merged_dwimap.json": "",
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"sub-01_model-bs_param-vf_desc-merged_dwimap.nii.gz": "",
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"sub-01_model-bs_param-vf_desc-merged_dwimap.json": "",
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},
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},
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},
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}
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) }}
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Dimensions of NIfTI image "`sub-01_model-bs_desc-mean_param-s0_dwimap.nii.gz`": *I*x*J*x*K* ([scalar](#encoding-scalar))
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Dimensions of NIfTI image "`sub-01_model-bs_desc-mean_param-polar_dwimap.nii.gz`": *I*x*J*x*K*x(*2*x*N*) ([spherical coordinates](#encoding-spherical), orientations only; *N* orientations per voxel)
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Dimensions of NIfTI image "`sub-01_model-bs_desc-mean_param-vector_dwimap.nii.gz`": *I*x*J*x*K*x(*3*x*N*) ([3-vectors](#encoding-3vectors), unit norm; *N* orientations per voxel)
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Dimensions of NIfTI image "`sub-01_model-bs_desc-mean_param-vf_dwimap.nii.gz`": *I*x*J*x*K*x*N* ([scalar](#encoding-scalar); *N* values per voxel)
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Dimensions of NIfTI image "`sub-01_model-bs_desc-mean_param-vfsum_dwimap.nii.gz`": *I*x*J*x*K* ([scalar](#encoding-scalar))
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Dimensions of NIfTI image "`sub-01_model-bs_desc-mean_param-diffusivity_dwimap.nii.gz`": *I*x*J*x*K* ([scalar](#encoding-scalar))
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Dimensions of NIfTI image "`sub-01_model-bs_desc-mean_param-dstd_dwimap.nii.gz`": *I*x*J*x*K* ([scalar](#encoding-scalar))
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Dimensions of NIfTI image "`sub-01_model-bs_desc-merged_param-polar_dwimap.nii.gz`": *I*x*J*x*K*x(*2*x*N*)x*R* ([spherical coordinates](#encoding-spherical), orientations only; *N* orientations per voxel; *R* bootstrap realisations)
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Dimensions of NIfTI image "`sub-01_model-bs_desc-merged_param-vf_dwimap.nii.gz`": *I*x*J*x*K*x*N*x*R* ([scalar](#encoding-scalar); *N* values per voxel; *R* bootstrap realisations)
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Dimensions of NIfTI image "`sub-01_model-bs_param-s0_desc-mean_dwimap.nii.gz`": *I*x*J*x*K* ([scalar](#encoding-scalar))
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Dimensions of NIfTI image "`sub-01_model-bs_param-polar_desc-mean_dwimap.nii.gz`": *I*x*J*x*K*x(*2*x*N*) ([spherical coordinates](#encoding-spherical), orientations only; *N* orientations per voxel)
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Dimensions of NIfTI image "`sub-01_model-bs_param-vector_desc-mean_dwimap.nii.gz`": *I*x*J*x*K*x(*3*x*N*) ([3-vectors](#encoding-3vectors), unit norm; *N* orientations per voxel)
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Dimensions of NIfTI image "`sub-01_model-bs_param-vf_desc-mean_dwimap.nii.gz`": *I*x*J*x*K*x*N* ([scalar](#encoding-scalar); *N* values per voxel)
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Dimensions of NIfTI image "`sub-01_model-bs_param-vfsum_desc-mean_dwimap.nii.gz`": *I*x*J*x*K* ([scalar](#encoding-scalar))
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Dimensions of NIfTI image "`sub-01_model-bs_param-diffusivity_desc-mean_dwimap.nii.gz`": *I*x*J*x*K* ([scalar](#encoding-scalar))
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Dimensions of NIfTI image "`sub-01_model-bs_param-dstd_desc-mean_dwimap.nii.gz`": *I*x*J*x*K* ([scalar](#encoding-scalar))
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Dimensions of NIfTI image "`sub-01_model-bs_param-polar_desc-merged_dwimap.nii.gz`": *I*x*J*x*K*x(*2*x*N*)x*R* ([spherical coordinates](#encoding-spherical), orientations only; *N* orientations per voxel; *R* bootstrap realisations)
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Dimensions of NIfTI image "`sub-01_model-bs_param-vf_desc-merged_dwimap.nii.gz`": *I*x*J*x*K*x*N*x*R* ([scalar](#encoding-scalar); *N* values per voxel; *R* bootstrap realisations)
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Contents of JSON file "`sub-01_model-bs_desc-mean_param-s0_dwimap.json`":
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Contents of JSON file "`sub-01_model-bs_param-s0_desc-mean_dwimap.json`":
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```JSON
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{
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}
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```
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Contents of JSON file "`sub-01_model-bs_desc-mean_param-polar_dwimap.json`":
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Contents of JSON file "`sub-01_model-bs_param-polar_desc-mean_dwimap.json`":
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```JSON
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{
@@ -653,7 +653,7 @@ Contents of JSON file "`sub-01_model-bs_desc-mean_param-polar_dwimap.json`":
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}
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```
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Contents of JSON file "`sub-01_model-bs_desc-mean_param-vector_dwimap.json`":
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Contents of JSON file "`sub-01_model-bs_param-vector_desc-mean_dwimap.json`":
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```JSON
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{
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}
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```
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Contents of JSON file "`sub-01_model-bs_desc-mean_param-vf_dwimap.json`":
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Contents of JSON file "`sub-01_model-bs_param-vf_desc-mean_dwimap.json`":
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```JSON
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{
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}
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```
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Contents of JSON file "`sub-01_model-bs_desc-mean_param-vfsum_dwimap.json`":
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Contents of JSON file "`sub-01_model-bs_param-vfsum_desc-mean_dwimap.json`":
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```JSON
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{
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}
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```
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Contents of JSON file "`sub-01_model-bs_desc-mean_param-diffusivity_dwimap.json`":
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Contents of JSON file "`sub-01_model-bs_param-diffusivity_desc-mean_dwimap.json`":
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```JSON
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{
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}
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```
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Contents of JSON file "`sub-01_model-bs_desc-mean_param-dstd_dwimap.json`":
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Contents of JSON file "`sub-01_model-bs_param-dstd_desc-mean_dwimap.json`":
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```JSON
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{
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"Units": "TODO"
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}
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Contents of JSON file "`sub-01_model-bs_desc-merged_param-polar_dwimap.json`":
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Contents of JSON file "`sub-01_model-bs_param-polar_desc-merged_dwimap.json`":
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```JSON
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{
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Contents of JSON file "`sub-01_model-bs_desc-merged_param-vf_dwimap.json`":
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Contents of JSON file "`sub-01_model-bs_param-vf_desc-merged_dwimap.json`":
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```JSON
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{
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- Care must be taken for images of greater than three dimensions
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where additional dimensions do *not* encode anisotropy information:
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- In image `"*_desc-mean*_param-vf_*"`,
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- In image `"*_param-vf_desc-mean_dwimap.nii.gz"`,
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the fourth image axis encodes scalar information across stick components.
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Since this is *not* coefficients in some orientation encoding,
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but the image possesses more than three axes,
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and therefore the fact that it encodes a scalar parameter
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can be robustly inferred without reference to metadata information.
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- In image `"sub-01_model-bs_desc-merged_param-vf_dwimap.json"`,
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- In image `"sub-01_model-bs_param-vf_desc-merged_dwimap.json"`,
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there are two extra image dimensions beyond the three spatial dimensions:
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the fourth image axis encodes across the multiple stick components per voxel,
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and the fifth axis encodes realisations across bootstraps.

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