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-pilot001_acq-highres_dir-unknown_desc-heatmap_dwi.svg

Fractional anisotropy (FA) map

Reconstructed FA map.

Get figure file: sub-001/figures/sub-001_ses-pilot001_acq-highres_dir-unknown_desc-fa_dwi.svg

Mean diffusivity (MD) map

Reconstructed MD map.

Get figure file: sub-001/figures/sub-001_ses-pilot001_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-pilot001_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-pilot001_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-pilot001_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-pilot001_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-pilot001_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-pilot001_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-pilot001_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-pilot001_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-pilot001_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-pilot001_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-pilot001_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-pilot001_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-pilot001_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-pilot001_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-pilot001_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-pilot001/dwi/sub-001_ses-pilot001_acq-highres_dir-unknown_dwi.nii.gz
VersionsMRIQC24.0.0
VersionsNiPype1.8.7.dev0
VersionsTemplateFlow24.2.0.dev49+gb1f2eb2a.d20240413
md5sum996b7df3171759ecd888c3985c17326f

AcquisitionMatrixPE146
AcquisitionNumber1
AcquisitionTime15:56:8.322500
B0FieldSource['pilot001pepolarb0', 'pilot001phasediff']
BandwidthPerPixelPhaseEncode29.354
BaseResolution146
BodyPartExaminedBRAIN
CoilCombinationMethodAdaptive Combine
CoilStringHeadNeck_64
ConversionSoftwaredcm2niix
ConversionSoftwareVersionv1.0.20220720
DerivedVendorReportedEchoSpacing0.000700005
DeviceSerialNumber67014
DiffusionSchemeBipolar
DwellTime2.1e-06
EchoTime0.091
EchoTrainLength43
EffectiveEchoSpacing0.000233335
FlipAngle90
HeudiconvVersion1.0.0
ImageOrientationPatientDICOM[0.99604, 0.0560113, 0.0690431, -0.0598735, 0.996679, 0.0551988]
ImageType['ORIGINAL', 'PRIMARY', 'DIFFUSION', 'NONE', 'ND', 'NORM', '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
MultibandAccelerationFactor2
NonlinearGradientCorrectionFalse
ParallelReductionFactorInPlane3
PartialFourier0.875
PatientPositionHFS
PercentPhaseFOV100
PercentSampling100
PhaseEncodingDirectionj-
PhaseEncodingSteps146
PhaseResolution1
PixelBandwidth1631
ProcedureStepDescriptionRESEARCH Oscar
ProtocolNamemicro_struct_137dir_BIPOLAR_b3000_1.6mm-iso
PulseSequenceDetails%SiemensSeq%\ep2d_diff
ReceiveCoilActiveElementsHC1-6
ReceiveCoilNameHeadNeck_64
ReconMatrixPE146
RefLinesPE108
RepetitionTime7.8
SAR0.279493
ScanOptionsPFP\FS\PER
ScanningSequenceGR\EP
SequenceName*ep_b0
SequenceVariantSK
SeriesDescriptionmicro_struct_137dir_BIPOLAR_b3000_1.6mm-iso
SeriesNumber6
ShimSetting[8242, -5651, -6027, 588, -56, -343, 30, 14]
SliceThickness1.6
SliceTiming[7.7825, 0, 7.965, 0.1825, 8.145, 0.3625, 8.3275, 0.5425, 8.5075, 0.725, 8.6875, 0.905, 8.87, 1.0875, 9.05, 1.2675, 9.2325, 1.4475, 9.4125, 1.63, 9.5925, 1.81, 9.775, 1.9925, 9.955, 2.1725, 10.1375, 2.3525, 10.3175, 2.535, 10.4975, 2.715, 10.68, 2.8975, 10.86, 3.0775, 11.0425, 3.2575, 11.2225, 3.44, 11.4025, 3.62, 11.585, 3.8025, 11.765, 3.9825, 11.9475, 4.1625, 12.1275, 4.345, 12.3075, 4.525, 12.49, 4.7075, 12.67, 4.8875, 12.8525, 5.0675, 13.0325, 5.25, 13.2125, 5.43, 13.395, 5.6125, 13.575, 5.7925, 13.7575, 5.9725, 13.9375, 6.155, 14.1175, 6.335, 14.3, 6.5175, 14.48, 6.6975, 14.6625, 6.8775, 14.8425, 7.06, 15.0225, 7.24, 15.205, 7.4225, 15.385, 7.6025]
SoftwareVersionssyngo MR XA30
SpacingBetweenSlices1.6
StationNameLRG10884
TotalReadoutTime0.0338336
TxRefAmp245.506
VendorReportedEchoSpacing0.0007
dcmmetaaffine[[-1.630507469177246, -0.09801232069730759, 0.10499999672174454, 121.54178619384766], [-0.09168993681669235, 1.6315535306930542, 0.0949999988079071, -99.51126861572266], [0.11302286386489868, -0.0903598815202713, 1.5937000513076782, -54.200218200683594], [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, 85.0], [0.0, 0.0, 0.0, 1.0]]
dcmmetashape[146, 146, 86, 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]
bdiffsmax0.2856
bdiffsmean0.1232
bdiffsmedian0.1324
bdiffsmin0.0028
efcshell013.3275
efcshell020.5424
efcshell030.4794
efcshell040.4785
efcshell050.489
fadegenerate0.0
fanans0.0
fbershell01-633.75
fbershell023481.0
fbershell032401.0
fbershell04756.25
fbershell051444.0
fdmean11.4479
fdnum140
fdperc95.23809523809524
ndc0.8949
sigmacc35.5825
sigmapca15.9949
sigmapiesno1.6508
snrccshell06.07
snrccshell1best6.13
snrccshell1worst6.13
snrccshell2best4.13
snrccshell2worst2.74
snrccshell3best3.11
snrccshell3worst2.19
snrccshell4best1.66
snrccshell4worst1.69
spikesglobal59.21
spikesslicei314.24
spikesslicej298.53
spikesslicek386.79
summarybgk149.1699
summarybgmad2.9652
summarybgmean12.3379
summarybgmedian2.0
summarybgn1492223.0
summarybgp050.0
summarybgp9558.0
summarybgstdv35.3081
summaryfgk6.239
summaryfgmad85.9909
summaryfgmean298.8448
summaryfgmedian241.0
summaryfgn340953.0
summaryfgp05120.0
summaryfgp95694.0
summaryfgstdv185.5275
summarywmk23.7082
summarywmmad44.4781
summarywmmean216.1812
summarywmmedian209.0
summarywmn134712.0
summarywmp05121.0
summarywmp95328.0
summarywmstdv79.7711
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