Summary

Shell-wise joint distribution of SNR vs. FA in every voxel

This visualization divides the data by shells, and shows the joint distribution of SNR vs. FA. At the bottom, the distributions are marginalized for SNR. Please note that the figures of SNR provided are calculated with a coarse estimation of the signal variability, and therefore should be interpreted with care.

Get figure file: sub-001/figures/sub-001_ses-pilot005_acq-highres_dir-unknown_desc-heatmap_dwi.svg

Fractional anisotropy (FA) map

Reconstructed FA map.

Get figure file: sub-001/figures/sub-001_ses-pilot005_acq-highres_dir-unknown_desc-fa_dwi.svg

Mean diffusivity (MD) map

Reconstructed MD map.

Get figure file: sub-001/figures/sub-001_ses-pilot005_acq-highres_dir-unknown_desc-md_dwi.svg

DWI shells

Reports for: bval 0.

Voxel-wise average and standard deviation across volumes in this DWI shell.

This panel shows mosaics flickering between the voxel-wise average and standard deviation for each shell.

Problem loading figure sub-001/figures/sub-001_ses-pilot005_acq-highres_dir-unknown_desc-avgstd_bval-00000_dwi.svg. If the link below works, please try reloading the report in your browser.
Get figure file: sub-001/figures/sub-001_ses-pilot005_acq-highres_dir-unknown_desc-avgstd_bval-00000_dwi.svg

View of the background of the voxel-wise average of this DWI shell

This panel shows a mosaic enhancing the background around the head. Artifacts usually unveil themselves in the air surrounding the head, where no signal sources are present.

Get figure file: sub-001/figures/sub-001_ses-pilot005_acq-highres_dir-unknown_desc-background_bval-00000_dwi.svg

Reports for: bval 1000.

Voxel-wise average and standard deviation across volumes in this DWI shell.

This panel shows mosaics flickering between the voxel-wise average and standard deviation for each shell.

Problem loading figure sub-001/figures/sub-001_ses-pilot005_acq-highres_dir-unknown_desc-avgstd_bval-01000_dwi.svg. If the link below works, please try reloading the report in your browser.
Get figure file: sub-001/figures/sub-001_ses-pilot005_acq-highres_dir-unknown_desc-avgstd_bval-01000_dwi.svg

View of the background of the voxel-wise average of this DWI shell

This panel shows a mosaic enhancing the background around the head. Artifacts usually unveil themselves in the air surrounding the head, where no signal sources are present.

Get figure file: sub-001/figures/sub-001_ses-pilot005_acq-highres_dir-unknown_desc-background_bval-01000_dwi.svg

Reports for: bval 2000.

Voxel-wise average and standard deviation across volumes in this DWI shell.

This panel shows mosaics flickering between the voxel-wise average and standard deviation for each shell.

Problem loading figure sub-001/figures/sub-001_ses-pilot005_acq-highres_dir-unknown_desc-avgstd_bval-02000_dwi.svg. If the link below works, please try reloading the report in your browser.
Get figure file: sub-001/figures/sub-001_ses-pilot005_acq-highres_dir-unknown_desc-avgstd_bval-02000_dwi.svg

View of the background of the voxel-wise average of this DWI shell

This panel shows a mosaic enhancing the background around the head. Artifacts usually unveil themselves in the air surrounding the head, where no signal sources are present.

Get figure file: sub-001/figures/sub-001_ses-pilot005_acq-highres_dir-unknown_desc-background_bval-02000_dwi.svg

Reports for: bval 3000.

Voxel-wise average and standard deviation across volumes in this DWI shell.

This panel shows mosaics flickering between the voxel-wise average and standard deviation for each shell.

Problem loading figure sub-001/figures/sub-001_ses-pilot005_acq-highres_dir-unknown_desc-avgstd_bval-03000_dwi.svg. If the link below works, please try reloading the report in your browser.
Get figure file: sub-001/figures/sub-001_ses-pilot005_acq-highres_dir-unknown_desc-avgstd_bval-03000_dwi.svg

View of the background of the voxel-wise average of this DWI shell

This panel shows a mosaic enhancing the background around the head. Artifacts usually unveil themselves in the air surrounding the head, where no signal sources are present.

Get figure file: sub-001/figures/sub-001_ses-pilot005_acq-highres_dir-unknown_desc-background_bval-03000_dwi.svg

Reports for: bval 700.

Voxel-wise average and standard deviation across volumes in this DWI shell.

This panel shows mosaics flickering between the voxel-wise average and standard deviation for each shell.

Problem loading figure sub-001/figures/sub-001_ses-pilot005_acq-highres_dir-unknown_desc-avgstd_bval-00700_dwi.svg. If the link below works, please try reloading the report in your browser.
Get figure file: sub-001/figures/sub-001_ses-pilot005_acq-highres_dir-unknown_desc-avgstd_bval-00700_dwi.svg

View of the background of the voxel-wise average of this DWI shell

This panel shows a mosaic enhancing the background around the head. Artifacts usually unveil themselves in the air surrounding the head, where no signal sources are present.

Get figure file: sub-001/figures/sub-001_ses-pilot005_acq-highres_dir-unknown_desc-background_bval-00700_dwi.svg

About

Errors

Reproducibility and provenance information

Thanks for using MRIQC. The following information may assist in reconstructing the provenance of the corresponding derivatives.

Execution environmentposix
Input filename/sub-001/ses-pilot005/dwi/sub-001_ses-pilot005_acq-highres_dir-unknown_dwi.nii.gz
VersionsMRIQC24.0.0
VersionsNiPype1.8.7.dev0
VersionsTemplateFlow24.2.0.dev49+gb1f2eb2a.d20240413
md5sum27806280af72853a6abe3b62541e9e89

AcquisitionMatrixPE146
AcquisitionNumber1
AcquisitionTime17:11:20.987500
B0FieldSource['pilot005pepolarb0', 'pilot005phasediff']
BandwidthPerPixelPhaseEncode19.569
BaseResolution146
BodyPartExaminedBRAIN
CoilCombinationMethodAdaptive Combine
CoilStringHeadNeck_64
ConversionSoftwaredcm2niix
ConversionSoftwareVersionv1.0.20220720
DerivedVendorReportedEchoSpacing0.000700017
DeviceSerialNumber67014
DiffusionSchemeBipolar
DwellTime2.1e-06
EchoTime0.098
EchoTrainLength64
EffectiveEchoSpacing0.000350008
FlipAngle90
HeudiconvVersion1.0.0
ImageOrientationPatientDICOM[0.998587, -0.0141405, 0.0512236, 0.0135951, 0.999847, 0.0109789]
ImageType['ORIGINAL', 'PRIMARY', 'DIFFUSION', 'NONE', 'ND', 'MFSPLIT']
ImageTypeText['ORIGINAL', 'PRIMARY', 'DIFFUSION', 'NONE']
ImagingFrequency123.248
InPlanePhaseEncodingDirectionDICOMCOL
InstitutionAddressRue du Bugnon 21,Lausanne,District,CH,1011
InstitutionNameCHUV
MRAcquisitionType2D
MagneticFieldStrength3
ManufacturerSiemens
ManufacturersModelNameMAGNETOM Prisma Fit
ModalityMR
MultibandAccelerationFactor3
NonlinearGradientCorrectionFalse
ParallelReductionFactorInPlane2
PartialFourier0.875
PatientPositionHFS
PercentPhaseFOV100
PercentSampling100
PhaseEncodingDirectionj
PhaseEncodingSteps146
PhaseResolution1
PixelBandwidth1631
ProcedureStepDescriptionRESEARCH Oscar
ProtocolNamemicro_struct_137dir_BIPOLAR_b3000_1.6mm-iso_PA
PulseSequenceDetails%SiemensSeq%\ep2d_diff
ReceiveCoilActiveElementsHC1-6
ReceiveCoilNameHeadNeck_64
ReconMatrixPE146
RefLinesPE54
RepetitionTime7.8
SAR0.244407
ScanOptionsPFP\FS\PER
ScanningSequenceGR\EP
SequenceName*ep_b0
SequenceVariantSK
SeriesDescriptionmicro_struct_137dir_BIPOLAR_b3000_1.6mm-iso_PA
SeriesNumber15
ShimSetting[8237, -5633, -6049, 586, -76, -322, 36, -1]
SliceThickness1.6
SliceTiming[0, 8.58, 0.195, 8.775, 0.39, 8.97, 0.585, 9.165, 0.78, 9.36, 0.975, 9.555, 1.17, 9.75, 1.365, 9.945, 1.56, 10.14, 1.755, 10.335, 1.95, 10.53, 2.145, 10.725, 2.34, 10.92, 2.535, 11.115, 2.73, 11.31, 2.925, 11.505, 3.12, 11.7, 3.315, 11.895, 3.51, 12.09, 3.705, 12.285, 3.9, 12.48, 4.095, 12.675, 4.29, 12.87, 4.485, 13.065, 4.68, 13.26, 4.875, 13.455, 5.07, 13.65, 5.265, 13.845, 5.46, 14.04, 5.655, 14.235, 5.85, 14.43, 6.045, 14.625, 6.24, 14.82, 6.435, 15.015, 6.63, 15.21, 6.825, 15.405, 7.02, 15.6, 7.215, 15.795, 7.41, 15.99, 7.605, 16.185, 7.8, 16.38, 7.995, 16.575, 8.19, 16.77, 8.385]
SoftwareVersionssyngo MR XA30
SpacingBetweenSlices1.6
StationNameLRG10884
TotalReadoutTime0.0507512
TxRefAmp246.554
VendorReportedEchoSpacing0.0007
dcmmetaaffine[[-1.6346769332885742, 0.02225504256784916, 0.0820000022649765, 113.87702178955078], [0.023147856816649437, 1.6367394924163818, 0.017000000923871994, -94.49323272705078], [0.08385252207517624, -0.017972350120544434, 1.5978000164031982, -60.67041015625], [0.0, 0.0, 0.0, 1.0]]
dcmmetareorient_transform[[0.0, -1.0, 0.0, 145.0], [1.0, 0.0, 0.0, 0.0], [0.0, 0.0, -1.0, 86.0], [0.0, 0.0, 0.0, 1.0]]
dcmmetashape[146, 146, 87, 147]
dcmmetaslice_dim2
dcmmetaversion0.6
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NumberOfShells4
bValues[0.0, 700.0, 1000.0, 1950.0, 2000.0, 2950.0, 3000.0]
bValuesEstimation[700.0, 1000.0, 2000.0, 3000.0]
bdiffsmax0.3724
bdiffsmean0.2479
bdiffsmedian0.281
bdiffsmin0.0101
efcshell012.0357
efcshell020.8672
efcshell030.6506
efcshell040.5654
efcshell050.6028
fadegenerate0.0
fanans0.0
fbershell0132.0625
fbershell02158.0408
fbershell03196.0
fbershell0481.0
fbershell0538.0278
fdmean8.5158
fdnum136
fdperc92.51700680272108
ndc0.7392
sigmacc40.0303
sigmapca15.1509
sigmapiesno1.3206
snrccshell04.27
snrccshell1best4.05
snrccshell1worst4.05
snrccshell2best2.5
snrccshell2worst1.64
snrccshell3best1.82
snrccshell3worst1.41
snrccshell4best1.41
snrccshell4worst0.95
spikesglobal63.08
spikesslicei318.66
spikesslicej309.02
spikesslicek363.5
summarybgk925.36
summarybgmad7.413
summarybgmean25.2561
summarybgmedian8.0
summarybgn1510748.0
summarybgp052.0
summarybgp9598.0
summarybgstdv89.398
summaryfgk8.1992
summaryfgmad145.295
summaryfgmean354.7204
summaryfgmedian275.0
summaryfgn343744.0
summaryfgp05100.0
summaryfgp95919.0
summaryfgstdv271.5369
summarywmk15.9591
summarywmmad78.5779
summarywmmean220.3265
summarywmmedian212.0
summarywmn151230.0
summarywmp0582.0
summarywmp95378.0
summarywmstdv102.4275
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