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-pilot020_acq-highres_dir-PA_run-2_desc-heatmap_dwi.svg

Fractional anisotropy (FA) map

Reconstructed FA map.

Get figure file: sub-001/figures/sub-001_ses-pilot020_acq-highres_dir-PA_run-2_desc-fa_dwi.svg

Mean diffusivity (MD) map

Reconstructed MD map.

Get figure file: sub-001/figures/sub-001_ses-pilot020_acq-highres_dir-PA_run-2_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-pilot020_acq-highres_dir-PA_run-2_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-pilot020_acq-highres_dir-PA_run-2_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-pilot020_acq-highres_dir-PA_run-2_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-pilot020_acq-highres_dir-PA_run-2_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-pilot020_acq-highres_dir-PA_run-2_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-pilot020_acq-highres_dir-PA_run-2_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-pilot020_acq-highres_dir-PA_run-2_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-pilot020_acq-highres_dir-PA_run-2_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-pilot020_acq-highres_dir-PA_run-2_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-pilot020_acq-highres_dir-PA_run-2_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-pilot020_acq-highres_dir-PA_run-2_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-pilot020_acq-highres_dir-PA_run-2_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-pilot020_acq-highres_dir-PA_run-2_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-pilot020_acq-highres_dir-PA_run-2_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-pilot020_acq-highres_dir-PA_run-2_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-pilot020/dwi/sub-001_ses-pilot020_acq-highres_dir-PA_run-2_dwi.nii.gz
VersionsMRIQC24.0.0
VersionsNiPype1.8.7.dev0
VersionsTemplateFlow24.2.0.dev49+gb1f2eb2a.d20240413
md5sum5f202b76dba214d60a807f0c695d0ad5

AcquisitionMatrixPE146
AcquisitionNumber1
AcquisitionTime18:07:18.905000
B0FieldSource['pilot020pepolarb0', 'pilot020phasediff']
BandwidthPerPixelPhaseEncode19.569
BaseResolution146
BodyPartExaminedBRAIN
CoilCombinationMethodAdaptive Combine
CoilStringHeadNeck_64
ConversionSoftwaredcm2niix
ConversionSoftwareVersionv1.0.20220720
Deltas[0.0233, 0.0475]
DerivedVendorReportedEchoSpacing0.000700017
DeviceSerialNumber67014
DiffusionSchemeMonopolar
DwellTime2.1e-06
EchoTime0.098
EchoTrainLength64
EffectiveEchoSpacing0.000350008
FlipAngle90
HeudiconvVersion1.0.0
ImageOrientationPatientDICOM[0.998972, 0.0313919, 0.0326963, -0.0286018, 0.996175, -0.0825621]
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
ProtocolNamedwi-dwi_acq-highres_dir-PA__trigger_monopolar
PulseSequenceDetails%CustomerSeq%\ep2d_diff_trigg
ReceiveCoilActiveElementsHC1-7
ReceiveCoilNameHeadNeck_64
ReconMatrixPE146
RefLinesPE54
RepetitionTime7
SAR0.172128
ScanOptionsPFP\FS\PER
ScanningSequenceGR\EP
SequenceNameep_b0
SequenceVariantSK
SeriesDescriptiondwi-dwi_acq-highres_dir-PA__trigger_monopolar
SeriesNumber12
ShimSetting[8231, -5631, -6044, 606, -47, -362, 14, 0]
SliceThickness1.6
SliceTiming[0, 6.145, 0.14, 6.285, 0.28, 6.425, 0.42, 6.5625, 0.56, 6.7025, 0.7, 6.8425, 0.8375, 6.9825, 0.9775, 7.1225, 1.1175, 7.2625, 1.2575, 7.4025, 1.3975, 7.54, 1.5375, 7.68, 1.6775, 7.82, 1.815, 7.96, 1.955, 8.1, 2.095, 8.24, 2.235, 8.38, 2.375, 8.5175, 2.515, 8.6575, 2.655, 8.7975, 2.7925, 8.9375, 2.9325, 9.0775, 3.0725, 9.2175, 3.2125, 9.3575, 3.3525, 9.495, 3.4925, 9.635, 3.6325, 9.775, 3.77, 9.915, 3.91, 10.055, 4.05, 10.195, 4.19, 10.335, 4.33, 10.4725, 4.47, 10.6125, 4.6075, 10.7525, 4.7475, 10.8925, 4.8875, 11.0325, 5.0275, 11.1725, 5.1675, 11.3125, 5.3075, 11.45, 5.4475, 11.59, 5.585, 11.73, 5.725, 11.87, 5.865, 12.01, 6.005]
SoftwareVersionssyngo MR XA30
SpacingBetweenSlices1.6
StationNameLRG10884
TotalReadoutTime0.0507512
TxRefAmp247.631
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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, 29]
dcmmetaslice_dim2
dcmmetaversion0.6
time{'samples': {'AcquisitionNumber': [1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29], 'ContentTime': ['180726', '180733', '180740', '180747', '180754', '180801', '180808', '180815', '180822', '180829', '180836', '180843', '180850', '180857', '180904', '180911', '180918', '180925', '180932', '180939', '180946', '180953', '181000', '181007', '181014', '181021', '181028', '181035', '181042'], 'InstanceCreationTime': ['180718.905000', '180725.905000', '180732.905000', '180739.905000', '180746.905000', '180753.905000', '180800.905000', '180807.905000', '180814.905000', '180821.905000', '180828.905000', '180835.905000', '180842.905000', '180849.905000', '180856.905000', '180903.905000', '180910.905000', '180917.905000', '180924.905000', '180931.905000', '180938.905000', '180945.905000', '180952.905000', '180959.905000', '181006.905000', '181013.905000', '181020.905000', '181027.905000', '181034.905000'], 'LargestImagePixelValue': 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NumberOfShells4
bValues[0.0, 700.0, 1000.0, 2000.0, 3000.0]
bValuesEstimation[700.0, 1000.0, 2000.0, 3000.0]
bdiffsmax0.3301
bdiffsmean0.2281
bdiffsmedian0.2268
bdiffsmin0.0088
efcshell012.1332
efcshell021.0511
efcshell030.8297
efcshell040.5722
efcshell050.595
fadegenerate0.0
fanans0.0
fbershell0131.5625
fbershell02105.0625
fbershell03169.0
fbershell04113.7778
fbershell0553.7778
fdmean5.0898
fdnum28
fdperc96.55172413793103
ndc0.2133
sigmacc65.2345
sigmapca16.1383
sigmapiesno1.6508
snrccshell03.06
snrccshell1best4.31
snrccshell1worst4.31
snrccshell2best2.59
snrccshell2worst2.59
snrccshell3best1.42
snrccshell3worst1.15
snrccshell4best0.95
snrccshell4worst0.78
spikesglobal303.35
spikesslicei1612.56
spikesslicej1522.97
spikesslicek1669.46
summarybgk409.342
summarybgmad8.8956
summarybgmean31.7379
summarybgmedian9.0
summarybgn1514455.0
summarybgp051.0
summarybgp95120.0
summarybgstdv112.1623
summaryfgk8.9367
summaryfgmad185.3253
summaryfgmean424.1894
summaryfgmedian321.0
summaryfgn340037.0
summaryfgp05105.0
summaryfgp951159.0
summaryfgstdv354.3957
summarywmk11.8225
summarywmmad155.6732
summarywmmean358.1847
summarywmmedian293.0
summarywmn290704.0
summarywmp0599.0
summarywmp95866.0
summarywmstdv263.8866
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