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-pilot012_acq-highres_dir-PA_desc-heatmap_dwi.svg

Fractional anisotropy (FA) map

Reconstructed FA map.

Get figure file: sub-001/figures/sub-001_ses-pilot012_acq-highres_dir-PA_desc-fa_dwi.svg

Mean diffusivity (MD) map

Reconstructed MD map.

Get figure file: sub-001/figures/sub-001_ses-pilot012_acq-highres_dir-PA_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-pilot012_acq-highres_dir-PA_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-pilot012_acq-highres_dir-PA_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-pilot012_acq-highres_dir-PA_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-pilot012_acq-highres_dir-PA_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-pilot012_acq-highres_dir-PA_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-pilot012_acq-highres_dir-PA_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-pilot012_acq-highres_dir-PA_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-pilot012_acq-highres_dir-PA_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-pilot012_acq-highres_dir-PA_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-pilot012_acq-highres_dir-PA_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-pilot012_acq-highres_dir-PA_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-pilot012_acq-highres_dir-PA_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-pilot012_acq-highres_dir-PA_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-pilot012_acq-highres_dir-PA_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-pilot012_acq-highres_dir-PA_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-pilot012/dwi/sub-001_ses-pilot012_acq-highres_dir-PA_dwi.nii.gz
VersionsMRIQC24.0.0
VersionsNiPype1.8.7.dev0
VersionsTemplateFlow24.2.0.dev49+gb1f2eb2a.d20240413
md5sumd6f74341d9311e125bee799e24caa03b

AcquisitionMatrixPE146
AcquisitionNumber1
AcquisitionTime16:59:55.372500
B0FieldSource['pilot012pepolarb0', 'pilot012phasediff']
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[0.999998, -0.00176222, -0.000885782, 0.00139625, 0.949713, -0.313118]
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__140dir_monopolar
PulseSequenceDetails%SiemensSeq%\ep2d_diff
ReceiveCoilActiveElementsHC1-7
ReceiveCoilNameHeadNeck_64
ReconMatrixPE146
RefLinesPE54
RepetitionTime7.8
SAR0.159963
ScanOptionsPFP\FS\PER
ScanningSequenceGR\EP
SequenceName*ep_b0
SequenceVariantSK
SeriesDescriptiondwi-dwi_acq-highres_dir-PA__140dir_monopolar
SeriesNumber7
ShimSetting[8244, -5620, -5991, 685, -54, -193, 20, 19]
SliceThickness1.6
SliceTiming[0, 6.145, 0.14, 6.2825, 0.28, 6.4225, 0.42, 6.5625, 0.5575, 6.7025, 0.6975, 6.8425, 0.8375, 6.9825, 0.9775, 7.1225, 1.1175, 7.26, 1.2575, 7.4, 1.3975, 7.54, 1.535, 7.68, 1.675, 7.82, 1.815, 7.96, 1.955, 8.1, 2.095, 8.2375, 2.235, 8.3775, 2.375, 8.5175, 2.5125, 8.6575, 2.6525, 8.7975, 2.7925, 8.9375, 2.9325, 9.0775, 3.0725, 9.215, 3.2125, 9.355, 3.3525, 9.495, 3.49, 9.635, 3.63, 9.775, 3.77, 9.915, 3.91, 10.055, 4.05, 10.1925, 4.19, 10.3325, 4.33, 10.4725, 4.4675, 10.6125, 4.6075, 10.7525, 4.7475, 10.8925, 4.8875, 11.0325, 5.0275, 11.17, 5.1675, 11.31, 5.3075, 11.45, 5.445, 11.59, 5.585, 11.73, 5.725, 11.87, 5.865, 12.01, 6.005]
SoftwareVersionssyngo MR XA30
SpacingBetweenSlices1.6
StationNameLRG10884
TotalReadoutTime0.0507512
TxRefAmp247.841
VendorReportedEchoSpacing0.0007
dcmmetaaffine[[-1.6369867324829102, 0.0022856472060084343, -0.0020000000949949026, 119.05657958984375], [0.002884736517444253, 1.5546706914901733, -0.5009999871253967, -81.03824615478516], [-0.0014500162797048688, 0.5125710368156433, 1.5199999809265137, -81.29779815673828], [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, 141]
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], 'ContentTime': ['170004', '170011', '170019', '170027', '170035', '170042', '170050', '170058', '170106', '170113', '170121', '170129', '170137', '170145', '170152', '170200', '170208', '170216', '170224', '170232', '170239', '170247', '170255', '170303', '170310', '170318', '170326', '170334', '170342', '170349', '170357', '170405', '170413', '170421', 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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]
bdiffsmax0.1434
bdiffsmean0.0496
bdiffsmedian0.0319
bdiffsmin0.0028
efcshell012.3319
efcshell021.1324
efcshell030.9147
efcshell040.6017
efcshell050.6052
fadegenerate0.0
fanans0.0
fbershell0126.5625
fbershell02127.3673
fbershell03128.3265
fbershell04100.0
fbershell0541.3265
fdmean9.4492
fdnum140
fdperc99.29078014184397
ndc0.4946
sigmacc41.5129
sigmapca15.7337
sigmapiesno1.3206
snrccshell04.32
snrccshell1best4.14
snrccshell1worst4.14
snrccshell2best2.78
snrccshell2worst2.51
snrccshell3best2.38
snrccshell3worst1.37
snrccshell4best1.46
snrccshell4worst0.85
spikesglobal66.21
spikesslicei417.65
spikesslicej391.96
spikesslicek385.95
summarybgk674.1653
summarybgmad7.413
summarybgmean28.4913
summarybgmedian8.0
summarybgn1509054.0
summarybgp052.0
summarybgp95116.0
summarybgstdv101.2729
summaryfgk8.9855
summaryfgmad201.6339
summaryfgmean455.5848
summaryfgmedian342.0
summaryfgn345438.0
summaryfgp05112.0
summaryfgp951243.0
summaryfgstdv386.3686
summarywmk24.366
summarywmmad96.3691
summarywmmean242.3513
summarywmmedian231.0
summarywmn114438.0
summarywmp0586.0
summarywmp95427.0
summarywmstdv118.5547
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