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-023_acq-highres_dir-AP_desc-heatmap_dwi.svg

Fractional anisotropy (FA) map

Reconstructed FA map.

Get figure file: sub-001/figures/sub-001_ses-023_acq-highres_dir-AP_desc-fa_dwi.svg

Mean diffusivity (MD) map

Reconstructed MD map.

Get figure file: sub-001/figures/sub-001_ses-023_acq-highres_dir-AP_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-023_acq-highres_dir-AP_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-023_acq-highres_dir-AP_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-023_acq-highres_dir-AP_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-023_acq-highres_dir-AP_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-023_acq-highres_dir-AP_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-023_acq-highres_dir-AP_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-023_acq-highres_dir-AP_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-023_acq-highres_dir-AP_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-023_acq-highres_dir-AP_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-023_acq-highres_dir-AP_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-023_acq-highres_dir-AP_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-023_acq-highres_dir-AP_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-023_acq-highres_dir-AP_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-023_acq-highres_dir-AP_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-023_acq-highres_dir-AP_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-023/dwi/sub-001_ses-023_acq-highres_dir-AP_dwi.nii.gz
VersionsMRIQC24.0.0
VersionsNiPype1.8.7.dev0
VersionsTemplateFlow24.2.0.dev49+gb1f2eb2a.d20240413
md5suma582e401cfbdaec3635dd4bf87da8be3

AcquisitionMatrixPE146
AcquisitionNumber1
AcquisitionTime19:40:23.570000
B0FieldSource['023pepolarb0', '023phasediff']
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[0.99879, -0.00271393, 0.0491024, 0.00889063, 0.991988, -0.126016]
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-AP__trigger_monopolar
PulseSequenceDetails%CustomerSeq%\ep2d_diff_trigg
ReceiveCoilActiveElementsHC1-7
ReceiveCoilNameHeadNeck_64
ReconMatrixPE146
RefLinesPE54
RepetitionTime7
SAR0.174747
ScanOptionsPFP\FS\PER
ScanningSequenceGR\EP
SequenceNameep_b0
SequenceVariantSK
SeriesDescriptiondwi-dwi_acq-highres_dir-AP__trigger_monopolar
SeriesNumber10
ShimSetting[8238, -5636, -6045, 609, -29, -361, 8, 18]
SliceThickness1.6
SliceTiming[0, 6.145, 0.14, 6.285, 0.28, 6.425, 0.42, 6.565, 0.56, 6.705, 0.7, 6.8425, 0.84, 6.9825, 0.9775, 7.1225, 1.1175, 7.2625, 1.2575, 7.4025, 1.3975, 7.5425, 1.5375, 7.68, 1.6775, 7.82, 1.8175, 7.96, 1.955, 8.1, 2.095, 8.24, 2.235, 8.38, 2.375, 8.52, 2.515, 8.6575, 2.655, 8.7975, 2.795, 8.9375, 2.9325, 9.0775, 3.0725, 9.2175, 3.2125, 9.3575, 3.3525, 9.4975, 3.4925, 9.635, 3.6325, 9.775, 3.7725, 9.915, 3.91, 10.055, 4.05, 10.195, 4.19, 10.335, 4.33, 10.475, 4.47, 10.6125, 4.61, 10.7525, 4.75, 10.8925, 4.8875, 11.0325, 5.0275, 11.1725, 5.1675, 11.3125, 5.3075, 11.4525, 5.4475, 11.59, 5.5875, 11.73, 5.7275, 11.87, 5.865, 12.01, 6.005]
SoftwareVersionssyngo MR XA30
SpacingBetweenSlices1.6
StationNameLRG10884
TotalReadoutTime0.0507512
TxRefAmp247.278
dcmmetaaffine[[-1.600800633430481, 0.014249368570744991, 0.07699999958276749, 113.94184112548828], [0.004349724389612675, 1.5898988246917725, -0.20200000703334808, -85.84733581542969], [0.07869838178157806, 0.2019708901643753, 1.5852999687194824, -81.83857727050781], [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, 280]
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, 148, 149, 150, 151, 152, 153, 154, 155, 156, 157, 158, 159, 160, 161, 162, 163, 164, 165, 166, 167, 168, 169, 170, 171, 172, 173, 174, 175, 176, 177, 178, 179, 180, 181, 182, 183, 184, 185, 186, 187, 188, 189, 190, 191, 192, 193, 194, 195, 196, 197, 198, 199, 200, 201, 202, 203, 204, 205, 206, 207, 208, 209, 210, 211, 212, 213, 214, 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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]
bdiffsmax0.2992
bdiffsmean0.0836
bdiffsmedian0.0956
bdiffsmin0.0058
efcshell012.2822
efcshell021.044
efcshell030.8281
efcshell040.6013
efcshell050.6193
fadegenerate0.0
fanans0.0
fbershell0126.2656
fbershell02110.25
fbershell03115.5625
fbershell0478.449
fbershell0532.6531
fdmean9.0568
fdnum279
fdperc99.64285714285714
ndc0.5887
sigmacc45.9607
sigmapca15.8714
sigmapiesno1.6508
snrccshell03.72
snrccshell1best3.5
snrccshell1worst3.5
snrccshell2best2.32
snrccshell2worst1.49
snrccshell3best1.95
snrccshell3worst1.11
snrccshell4best1.3
snrccshell4worst0.83
spikesglobal34.13
spikesslicei198.23
spikesslicej205.82
spikesslicek192.01
summarybgk172.4019
summarybgmad8.8956
summarybgmean28.7873
summarybgmedian9.0
summarybgn1498994.0
summarybgp052.0
summarybgp95107.0
summarybgstdv80.2236
summaryfgk9.9417
summaryfgmad171.9819
summaryfgmean407.7034
summaryfgmedian311.0
summaryfgn355498.0
summaryfgp05110.0
summaryfgp951067.0
summaryfgstdv325.6464
summarywmk12.8793
summarywmmad80.0605
summarywmmean226.4106
summarywmmedian224.0
summarywmn99376.0
summarywmp0599.0
summarywmp95365.0
summarywmstdv87.7851
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