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imaging.yaml
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# This document implements general imaging derivatives.
#
# The _volumetric rules cover supersets of files that would be covered by the
# common derivatives spec, namely, the space and description entities.
---
# Preprocessed and/or resampled volumes
anat_parametric_volumetric:
$ref:
- meta.templates.deriv.volumetric
- rules.files.raw.anat.parametric
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.raw.anat.parametric.entities
anat_parametric_volumetric_atlas:
$ref: rules.files.deriv.imaging.anat_parametric_volumetric
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.anat_parametric_volumetric.entities
anat_nonparametric_volumetric:
$ref:
- meta.templates.deriv.volumetric
- rules.files.raw.anat.nonparametric
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.raw.anat.nonparametric.entities
anat_nonparametric_volumetric_atlas:
$ref: rules.files.deriv.imaging.anat_nonparametric_volumetric
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.anat_nonparametric_volumetric.entities
anat_defacemask_volumetric:
$ref:
- meta.templates.deriv.volumetric
- rules.files.raw.anat.defacemask
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.raw.anat.defacemask.entities
anat_defacemask_volumetric_atlas:
$ref: rules.files.deriv.imaging.anat_defacemask_volumetric
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.anat_defacemask_volumetric.entities
anat_mese_volumetric:
$ref:
- meta.templates.deriv.volumetric
- rules.files.raw.anat.mese
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.raw.anat.mese.entities
anat_mese_volumetric_atlas:
$ref: rules.files.deriv.imaging.anat_mese_volumetric
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.anat_mese_volumetric.entities
anat_megre_volumetric:
$ref:
- meta.templates.deriv.volumetric
- rules.files.raw.anat.megre
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.raw.anat.megre.entities
anat_megre_volumetric_atlas:
$ref: rules.files.deriv.imaging.anat_megre_volumetric
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.anat_megre_volumetric.entities
anat_multiflip_volumetric:
$ref:
- meta.templates.deriv.volumetric
- rules.files.raw.anat.multiflip
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.raw.anat.multiflip.entities
anat_multiflip_volumetric_atlas:
$ref: rules.files.deriv.imaging.anat_multiflip_volumetric
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.anat_multiflip_volumetric.entities
anat_multiinversion_volumetric:
$ref:
- meta.templates.deriv.volumetric
- rules.files.raw.anat.multiinversion
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.raw.anat.multiinversion.entities
anat_multiinversion_volumetric_atlas:
$ref: rules.files.deriv.imaging.anat_multiinversion_volumetric
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.anat_multiinversion_volumetric.entities
anat_mp2rage_volumetric:
$ref:
- meta.templates.deriv.volumetric
- rules.files.raw.anat.mp2rage
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.raw.anat.mp2rage.entities
anat_mp2rage_volumetric_atlas:
$ref: rules.files.deriv.imaging.anat_mp2rage_volumetric
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.anat_mp2rage_volumetric.entities
anat_vfamt_volumetric:
$ref:
- meta.templates.deriv.volumetric
- rules.files.raw.anat.vfamt
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.raw.anat.vfamt.entities
anat_vfamt_volumetric_atlas:
$ref: rules.files.deriv.imaging.anat_vfamt_volumetric
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.anat_vfamt_volumetric.entities
anat_mtr_volumetric:
$ref:
- meta.templates.deriv.volumetric
- rules.files.raw.anat.mtr
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.raw.anat.mtr.entities
anat_mtr_volumetric_atlas:
$ref: rules.files.deriv.imaging.anat_mtr_volumetric
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.anat_mtr_volumetric.entities
dwi_dwi_volumetric:
$ref:
- meta.templates.deriv.volumetric
- rules.files.raw.dwi.dwi
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.raw.dwi.dwi.entities
dwi_dwi_volumetric_atlas:
$ref: rules.files.deriv.imaging.dwi_dwi_volumetric
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.dwi_dwi_volumetric.entities
dwi_sbref_volumetric:
$ref:
- meta.templates.deriv.volumetric
- rules.files.raw.dwi.sbref
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.raw.dwi.sbref.entities
dwi_sbref_volumetric_atlas:
$ref: rules.files.deriv.imaging.dwi_sbref_volumetric
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.deriv.imaging.dwi_sbref_volumetric.entities
dwi_scannerderivatives_volumetric:
$ref:
- meta.templates.deriv.volumetric
- rules.files.raw.dwi.ScannerDerivatives
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.raw.dwi.ScannerDerivatives.entities
dwi_scannerderivatives_volumetric_atlas:
$ref: rules.files.deriv.imaging.dwi_scannerderivatives_volumetric
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.dwi_scannerderivatives_volumetric.entities
func_volumetric:
$ref:
- meta.templates.deriv.volumetric
- rules.files.raw.func.func
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.raw.func.func.entities
func_volumetric_atlas:
$ref: rules.files.deriv.imaging.func_volumetric
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.func_volumetric.entities
func_phase_volumetric:
$ref:
- meta.templates.deriv.volumetric
- rules.files.raw.func.phase
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.raw.func.phase.entities
# NB: Not permitting deprecated phase suffix for atlases
fmap_fieldmaps_volumetric:
$ref:
- meta.templates.deriv.volumetric
- rules.files.raw.fmap.fieldmaps
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.raw.fmap.fieldmaps.entities
fmap_fieldmaps_volumetric_atlas:
$ref: rules.files.deriv.imaging.fmap_fieldmaps_volumetric
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.fmap_fieldmaps_volumetric.entities
fmap_pepolar_volumetric:
$ref:
- meta.templates.deriv.volumetric
- rules.files.raw.fmap.pepolar
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.raw.fmap.pepolar.entities
fmap_pepolar_volumetric_atlas:
$ref: rules.files.deriv.imaging.fmap_pepolar_volumetric
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.fmap_pepolar_volumetric.entities
fmap_pepolar_m0scan_volumetric:
$ref:
- meta.templates.deriv.volumetric
- rules.files.raw.fmap.pepolar_m0scan
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.raw.fmap.pepolar.entities
fmap_pepolar_m0scan_volumetric_atlas:
$ref: rules.files.deriv.imaging.fmap_pepolar_m0scan_volumetric
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.fmap_pepolar_m0scan_volumetric.entities
fmap_TB1DAM_volumetric:
$ref:
- meta.templates.deriv.volumetric
- rules.files.raw.fmap.TB1DAM
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.raw.fmap.TB1DAM.entities
fmap_TB1DAM_volumetric_atlas:
$ref: rules.files.deriv.imaging.fmap_TB1DAM_volumetric
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.fmap_TB1DAM_volumetric.entities
fmap_TB1EPI_volumetric:
$ref:
- meta.templates.deriv.volumetric
- rules.files.raw.fmap.TB1EPI
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.raw.fmap.TB1EPI.entities
fmap_TB1EPI_volumetric_atlas:
$ref: rules.files.deriv.imaging.fmap_TB1EPI_volumetric
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.fmap_TB1EPI_volumetric.entities
fmap_RFFieldMaps_volumetric:
$ref:
- meta.templates.deriv.volumetric
- rules.files.raw.fmap.RFFieldMaps
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.raw.fmap.RFFieldMaps.entities
fmap_RFFieldMaps_volumetric_atlas:
$ref: rules.files.deriv.imaging.fmap_RFFieldMaps_volumetric
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.fmap_RFFieldMaps_volumetric.entities
fmap_TB1SRGE_volumetric:
$ref:
- meta.templates.deriv.volumetric
- rules.files.raw.fmap.TB1SRGE
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.raw.fmap.TB1SRGE.entities
fmap_TB1SRGE_volumetric_atlas:
$ref: rules.files.deriv.imaging.fmap_TB1SRGE_volumetric
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.fmap_TB1SRGE_volumetric.entities
fmap_parametric_volumetric:
$ref:
- meta.templates.deriv.volumetric
- rules.files.raw.fmap.parametric
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.raw.fmap.parametric.entities
fmap_parametric_volumetric_atlas:
$ref: rules.files.deriv.imaging.fmap_parametric_volumetric
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.fmap_parametric_volumetric.entities
perf_asl_volumetric:
$ref:
- meta.templates.deriv.volumetric
- rules.files.raw.perf.asl
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.raw.perf.asl.entities
perf_asl_volumetric_atlas:
$ref: rules.files.deriv.imaging.perf_asl_volumetric
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.perf_asl_volumetric.entities
pet_pet_volumetric:
$ref:
- meta.templates.deriv.volumetric
- rules.files.raw.pet.pet
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.raw.pet.pet.entities
pet_pet_volumetric_atlas:
$ref: rules.files.deriv.imaging.pet_pet_volumetric
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.deriv.imaging.pet_pet_volumetric.entities
# Masks
anat_mask:
$ref:
- meta.templates.deriv.mask
- rules.files.raw.anat.nonparametric
entities:
# The nonparametric entities are a superset of parametric entities,
# so no need to duplicate.
$ref:
- meta.templates.deriv.mask.entities
- rules.files.raw.anat.nonparametric.entities
anat_mask_atlas:
$ref: rules.files.deriv.imaging.anat_mask
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.anat_mask.entities
dwi_mask:
$ref:
- meta.templates.deriv.mask
- rules.files.raw.dwi.dwi
entities:
$ref:
- meta.templates.deriv.mask.entities
- rules.files.raw.dwi.dwi.entities
dwi_mask_atlas:
$ref: rules.files.deriv.imaging.dwi_mask
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.dwi_mask.entities
func_mask:
$ref:
- meta.templates.deriv.mask
- rules.files.raw.func.func
entities:
$ref:
- meta.templates.deriv.mask.entities
- rules.files.raw.func.func.entities
func_mask_atlas:
$ref: rules.files.deriv.imaging.func_mask
entities:
$ref:
- meta.templates.deriv.volumetric.entities
- rules.files.deriv.imaging.func_mask.entities
# Discrete and probabilistic segmentations
anat_discrete_segmentation:
$ref:
- meta.templates.deriv.dseg
- rules.files.raw.anat.nonparametric
entities:
# ibid
$ref:
- meta.templates.deriv.dseg.entities
- rules.files.raw.anat.nonparametric.entities
anat_discrete_segmentation_atlas:
$ref: rules.files.deriv.imaging.anat_discrete_segmentation
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.anat_discrete_segmentation.entities
func_discrete_segmentation:
$ref:
- meta.templates.deriv.dseg
- rules.files.raw.func.func
entities:
$ref:
- meta.templates.deriv.dseg.entities
- rules.files.raw.func.func.entities
func_discrete_segmentation_atlas:
$ref: rules.files.deriv.imaging.func_discrete_segmentation
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.func_discrete_segmentation.entities
dwi_discrete_segmentation:
$ref:
- meta.templates.deriv.dseg
- rules.files.raw.dwi.dwi
entities:
$ref:
- meta.templates.deriv.dseg.entities
- rules.files.raw.dwi.dwi.entities
dwi_discrete_segmentation_atlas:
$ref: rules.files.deriv.imaging.dwi_discrete_segmentation
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.dwi_discrete_segmentation.entities
anat_probabilistic_segmentation:
$ref:
- meta.templates.deriv.probseg
- rules.files.raw.anat.nonparametric
entities:
# ibid
$ref:
- meta.templates.deriv.probseg.entities
- rules.files.raw.anat.nonparametric.entities
anat_probabilistic_segmentation_atlas:
$ref: rules.files.deriv.imaging.anat_probabilistic_segmentation
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.anat_probabilistic_segmentation.entities
func_probabilistic_segmentation:
$ref:
- meta.templates.deriv.probseg
- rules.files.raw.func.func
entities:
$ref:
- meta.templates.deriv.probseg.entities
- rules.files.raw.func.func.entities
func_probabilistic_segmentation_atlas:
$ref: rules.files.deriv.imaging.func_probabilistic_segmentation
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.func_probabilistic_segmentation.entities
dwi_probabilistic_segmentation:
$ref:
- meta.templates.deriv.probseg
- rules.files.raw.dwi.dwi
entities:
$ref:
- meta.templates.deriv.probseg.entities
- rules.files.raw.dwi.dwi.entities
dwi_probabilistic_segmentation_atlas:
$ref: rules.files.deriv.imaging.dwi_probabilistic_segmentation
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.dwi_probabilistic_segmentation.entities
anat_discrete_surface:
$ref:
- meta.templates.deriv.dseg_surface
- rules.files.raw.anat.nonparametric
entities:
# ibid
$ref:
- meta.templates.deriv.dseg_surface.entities
- rules.files.raw.anat.nonparametric.entities
anat_discrete_surface_atlas:
$ref: rules.files.deriv.imaging.anat_discrete_surface
entities:
$ref:
- meta.templates.atlas.base.entities
- rules.files.deriv.imaging.anat_discrete_surface.entities