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-pilot004_acq-highres_dir-unknown_desc-heatmap_dwi.svg

Fractional anisotropy (FA) map

Reconstructed FA map.

Get figure file: sub-001/figures/sub-001_ses-pilot004_acq-highres_dir-unknown_desc-fa_dwi.svg

Mean diffusivity (MD) map

Reconstructed MD map.

Get figure file: sub-001/figures/sub-001_ses-pilot004_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-pilot004_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-pilot004_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-pilot004_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-pilot004_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-pilot004_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-pilot004_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-pilot004_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-pilot004_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-pilot004_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-pilot004_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-pilot004_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-pilot004_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-pilot004_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-pilot004_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-pilot004_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-pilot004/dwi/sub-001_ses-pilot004_acq-highres_dir-unknown_dwi.nii.gz
VersionsMRIQC24.0.0
VersionsNiPype1.8.7.dev0
VersionsTemplateFlow24.2.0.dev49+gb1f2eb2a.d20240413
md5sumbc97e6bc21f38651da27ae8f55814b6a

AcquisitionMatrixPE146
AcquisitionNumber1
AcquisitionTime14:07:13.222500
B0FieldSource['pilot004pepolarb0', 'pilot004phasediff']
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[0.998749, 0.0229419, 0.0444266, -0.0249322, 0.998686, 0.0447753]
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
MultibandAccelerationFactor3
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
ReceiveCoilActiveElementsHC1-7
ReceiveCoilNameHeadNeck_64
ReconMatrixPE146
RefLinesPE108
RepetitionTime7.8
SAR0.270097
ScanOptionsPFP\FS\PER
ScanningSequenceGR\EP
SequenceName*ep_b0
SequenceVariantSK
SeriesDescriptionmicro_struct_137dir_BIPOLAR_b3000_1.6mm-iso
SeriesNumber18
ShimSetting[8230, -5647, -6054, 577, -63, -316, 24, 38]
SliceThickness1.6
SliceTiming[0, 7.965, 0.18, 8.145, 0.3625, 8.325, 0.5425, 8.5075, 0.725, 8.6875, 0.905, 8.87, 1.085, 9.05, 1.2675, 9.23, 1.4475, 9.4125, 1.63, 9.5925, 1.81, 9.775, 1.99, 9.955, 2.1725, 10.135, 2.3525, 10.3175, 2.535, 10.4975, 2.715, 10.68, 2.895, 10.86, 3.0775, 11.04, 3.2575, 11.2225, 3.44, 11.4025, 3.62, 11.585, 3.8, 11.765, 3.9825, 11.945, 4.1625, 12.1275, 4.345, 12.3075, 4.525, 12.49, 4.705, 12.67, 4.8875, 12.85, 5.0675, 13.0325, 5.25, 13.2125, 5.43, 13.395, 5.61, 13.575, 5.7925, 13.755, 5.9725, 13.9375, 6.155, 14.1175, 6.335, 14.3, 6.515, 14.48, 6.6975, 14.66, 6.8775, 14.8425, 7.06, 15.0225, 7.24, 15.205, 7.42, 15.385, 7.6025, 15.565, 7.7825]
SoftwareVersionssyngo MR XA30
SpacingBetweenSlices1.6
StationNameLRG10884
TotalReadoutTime0.0338336
TxRefAmp255.713
VendorReportedEchoSpacing0.0007
dcmmetaaffine[[-1.6349421739578247, -0.040813762694597244, 0.0689999982714653, 119.7179946899414], [-0.03755566105246544, 1.6348389387130737, 0.0729999989271164, -97.88065338134766], [0.07272589951753616, -0.07329671829938889, 1.5967999696731567, -58.24627685546875], [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
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, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64, 65, 66, 67, 68, 69, 70, 71, 72, 73, 74, 75, 76, 77, 78, 79, 80, 81, 82, 83, 84, 85, 86, 87, 88, 89, 90, 91, 92, 93, 94, 95, 96, 97, 98, 99, 100, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 138, 139, 140, 141, 142, 143, 144, 145, 146, 147], 'ContentTime': ['140722', '140729', '140737', '140745', '140753', '140801', '140808', '140816', '140824', '140832', '140840', '140847', '140855', '140903', '140911', '140919', '140926', '140934', '140942', '140950', '140958', '141005', '141013', '141021', '141029', '141037', '141044', '141052', '141100', '141108', '141116', 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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]
bdiffsmax0.2555
bdiffsmean0.1516
bdiffsmedian0.1641
bdiffsmin0.0083
efcshell013.1948
efcshell020.6055
efcshell030.5059
efcshell040.4801
efcshell050.4899
fadegenerate0.0
fanans0.0
fbershell01-381.75
fbershell023364.0
fbershell032652.25
fbershell04930.25
fbershell05462.25
fdmean11.0419
fdnum138
fdperc93.87755102040816
ndc0.6894
sigmacc50.4085
sigmapca18.125
sigmapiesno0.3301
snrccshell05.29
snrccshell1best5.16
snrccshell1worst5.16
snrccshell2best3.14
snrccshell2worst2.0
snrccshell3best2.25
snrccshell3worst1.75
snrccshell4best1.83
snrccshell4worst1.26
spikesglobal52.84
spikesslicei276.89
spikesslicej252.25
spikesslicek339.24
summarybgk134.0943
summarybgmad2.9652
summarybgmean12.3406
summarybgmedian2.0
summarybgn1511165.0
summarybgp050.0
summarybgp9556.0
summarybgstdv32.6208
summaryfgk6.8113
summaryfgmad88.9561
summaryfgmean316.09
summaryfgmedian269.0
summaryfgn343327.0
summaryfgp05133.0
summaryfgp95676.0
summaryfgstdv175.6849
summarywmk18.8936
summarywmmad56.3389
summarywmmean249.6247
summarywmmedian239.0
summarywmn161076.0
summarywmp05120.0
summarywmp95391.0
summarywmstdv98.8278
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