Basic echo-wise reports

Reports for: echo 1.

Standard deviation of signal through time

The voxel-wise standard deviation of the signal (variability along time).

Get figure file: sub-001/figures/sub-001_ses-pilot005_task-rest_acq-fa80_echo-1_desc-stdev_bold.svg

View of the background of the voxel-wise average of the BOLD timeseries

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-pilot005_task-rest_acq-fa80_echo-1_desc-background_bold.svg

Voxel-wise average of BOLD time-series, zoomed-in covering just the brain

This panel shows a mosaic of the brain. This mosaic is the most suitable to screen head-motion intensity inhomogeneities, global/local noise, signal leakage (for example, from the eyeballs and across the phase-encoding axis), etc.

Get figure file: sub-001/figures/sub-001_ses-pilot005_task-rest_acq-fa80_echo-1_desc-zoomed_bold.svg

Carpetplot and nuisance signals

The so-called «carpetplot» may assist in assessing head-motion derived artifacts and respiation effects.

Get figure file: sub-001/figures/sub-001_ses-pilot005_task-rest_acq-fa80_echo-1_desc-carpet_bold.svg

Reports for: echo 2.

Standard deviation of signal through time

The voxel-wise standard deviation of the signal (variability along time).

Get figure file: sub-001/figures/sub-001_ses-pilot005_task-rest_acq-fa80_echo-2_desc-stdev_bold.svg

View of the background of the voxel-wise average of the BOLD timeseries

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-pilot005_task-rest_acq-fa80_echo-2_desc-background_bold.svg

Voxel-wise average of BOLD time-series, zoomed-in covering just the brain

This panel shows a mosaic of the brain. This mosaic is the most suitable to screen head-motion intensity inhomogeneities, global/local noise, signal leakage (for example, from the eyeballs and across the phase-encoding axis), etc.

Get figure file: sub-001/figures/sub-001_ses-pilot005_task-rest_acq-fa80_echo-2_desc-zoomed_bold.svg

Carpetplot and nuisance signals

The so-called «carpetplot» may assist in assessing head-motion derived artifacts and respiation effects.

Get figure file: sub-001/figures/sub-001_ses-pilot005_task-rest_acq-fa80_echo-2_desc-carpet_bold.svg

Reports for: echo 3.

Standard deviation of signal through time

The voxel-wise standard deviation of the signal (variability along time).

Get figure file: sub-001/figures/sub-001_ses-pilot005_task-rest_acq-fa80_echo-3_desc-stdev_bold.svg

View of the background of the voxel-wise average of the BOLD timeseries

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-pilot005_task-rest_acq-fa80_echo-3_desc-background_bold.svg

Voxel-wise average of BOLD time-series, zoomed-in covering just the brain

This panel shows a mosaic of the brain. This mosaic is the most suitable to screen head-motion intensity inhomogeneities, global/local noise, signal leakage (for example, from the eyeballs and across the phase-encoding axis), etc.

Get figure file: sub-001/figures/sub-001_ses-pilot005_task-rest_acq-fa80_echo-3_desc-zoomed_bold.svg

Carpetplot and nuisance signals

The so-called «carpetplot» may assist in assessing head-motion derived artifacts and respiation effects.

Get figure file: sub-001/figures/sub-001_ses-pilot005_task-rest_acq-fa80_echo-3_desc-carpet_bold.svg

Reports for: echo 4.

Standard deviation of signal through time

The voxel-wise standard deviation of the signal (variability along time).

Get figure file: sub-001/figures/sub-001_ses-pilot005_task-rest_acq-fa80_echo-4_desc-stdev_bold.svg

View of the background of the voxel-wise average of the BOLD timeseries

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-pilot005_task-rest_acq-fa80_echo-4_desc-background_bold.svg

Voxel-wise average of BOLD time-series, zoomed-in covering just the brain

This panel shows a mosaic of the brain. This mosaic is the most suitable to screen head-motion intensity inhomogeneities, global/local noise, signal leakage (for example, from the eyeballs and across the phase-encoding axis), etc.

Get figure file: sub-001/figures/sub-001_ses-pilot005_task-rest_acq-fa80_echo-4_desc-zoomed_bold.svg

Carpetplot and nuisance signals

The so-called «carpetplot» may assist in assessing head-motion derived artifacts and respiation effects.

Get figure file: sub-001/figures/sub-001_ses-pilot005_task-rest_acq-fa80_echo-4_desc-carpet_bold.svg

Extended echo-wise reports

Reports for: echo 1.

Voxel-wise average of BOLD time-series

The average signal calculated across the last axis (time).

Get figure file: sub-001/figures/sub-001_ses-pilot005_task-rest_acq-fa80_echo-1_desc-mean_bold.svg

Reports for: echo 2.

Voxel-wise average of BOLD time-series

The average signal calculated across the last axis (time).

Get figure file: sub-001/figures/sub-001_ses-pilot005_task-rest_acq-fa80_echo-2_desc-mean_bold.svg

Reports for: echo 3.

Voxel-wise average of BOLD time-series

The average signal calculated across the last axis (time).

Get figure file: sub-001/figures/sub-001_ses-pilot005_task-rest_acq-fa80_echo-3_desc-mean_bold.svg

Reports for: echo 4.

Voxel-wise average of BOLD time-series

The average signal calculated across the last axis (time).

Get figure file: sub-001/figures/sub-001_ses-pilot005_task-rest_acq-fa80_echo-4_desc-mean_bold.svg

Extended reports shared across echos

Brain extraction performance

Brain mask as internally extracted by MRIQC. Defects on the brainmask could indicate problematic aspects of the image quality-wise.

Get figure file: sub-001/figures/sub-001_ses-pilot005_task-rest_acq-fa80_desc-brainmask_bold.svg

Spatial normalization of the anatomical image

This panel shows a quick-and-dirty nonlinear registration into the MNI152NLin2009cAsym template accessed with TemplateFlow.

Problem loading figure sub-001/figures/sub-001_ses-pilot005_task-rest_acq-fa80_desc-norm_bold.svg. If the link below works, please try reloading the report in your browser.
Get figure file: sub-001/figures/sub-001_ses-pilot005_task-rest_acq-fa80_desc-norm_bold.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 environmentsingularity
Input filename/sub-001/ses-pilot005/func/sub-001_ses-pilot005_task-rest_acq-fa80_echo-1_bold.nii.gz
VersionsMRIQC24.1.0.dev0+g3fe90466.d20240417
VersionsNiPype1.8.6
VersionsTemplateFlow24.2.0
md5sumf9fdb32bef75a6a912f90e24e8a84a96

AcquisitionDuration265.442
AcquisitionMatrixPE108
AcquisitionNumber1
AcquisitionTime16:50:4.287500
B0FieldSource['pilot005pepolarbold', 'pilot005phasediff']
BandwidthPerPixelPhaseEncode34.294
BaseResolution108
BodyPartExaminedBRAIN
CoilCombinationMethodSum of Squares
CoilStringHeadNeck_64
ConversionSoftwaredcm2niix
ConversionSoftwareVersionv1.0.20220720
DerivedVendorReportedEchoSpacing0.000539993
DeviceSerialNumber67014
DwellTime2e-06
EchoNumber1
EchoTime0.0126
EchoTrainLength40
EffectiveEchoSpacing0.000269996
FlipAngle80
HeudiconvVersion1.0.0
ImageCommentsUnaliased MB4/PE4/LB
ImageOrientationPatientDICOM[0.998233, 0.0495591, 0.0327836, -0.0484724, 0.998274, -0.0331517]
ImageType['ORIGINAL', 'PRIMARY', 'FMRI', 'NONE']
ImageTypeText['ORIGINAL', 'PRIMARY', 'M', 'MB', 'TE1', 'DIS2D']
ImagingFrequency123.248
InPlanePhaseEncodingDirectionDICOMCOL
InstitutionAddressRue du Bugnon 21,Lausanne,District,CH,1011
InstitutionNameCHUV
MRAcquisitionType2D
MTStateFalse
MagneticFieldStrength3
ManufacturerSiemens
ManufacturersModelNameMAGNETOM Prisma Fit
MatrixCoilModeGRAPPA
ModalityMR
MultibandAccelerationFactor4
NonlinearGradientCorrectionTrue
ParallelAcquisitionTechniqueGRAPPA
ParallelReductionFactorInPlane2
PartialFourier0.75
PartialFourierDirectionPHASE
PatientPositionHFS
PercentPhaseFOV100
PercentSampling100
PhaseEncodingDirectionj-
PhaseResolution1
PixelBandwidth2315
ProcedureStepDescriptionRESEARCH Oscar
ProtocolNamecmrr_mbep2d_bold_me4_sms4_fa80
PulseSequenceDetails%CustomerSeq%\cmrr_mbep2d_bold
PulseSequenceNameepfid2d4_108
ReceiveCoilActiveElementsHC1-6
ReceiveCoilNameHeadNeck_64
ReconMatrixPE108
RefLinesPE26
RepetitionTime1.573
ScanOptionsPFP\FS
ScanningSequenceEP
SequenceVariantSK\SS
SeriesDescriptioncmrr_mbep2d_bold_me4_sms4_fa80
SeriesNumber5
ShimSetting[8230, -5624, -6018, 699, -79, -124, 41, 44]
SliceThickness2
SliceTiming[0, 0.3325, 0.665, 0.9975, 1.33, 0.11, 0.4425, 0.775, 1.1075, 1.44, 0.22, 0.5525, 0.8875, 1.22, 0, 0.3325, 0.665, 0.9975, 1.33, 0.11, 0.4425, 0.775, 1.1075, 1.44, 0.22, 0.5525, 0.8875, 1.22, 0, 0.3325, 0.665, 0.9975, 1.33, 0.11, 0.4425, 0.775, 1.1075, 1.44, 0.22, 0.5525, 0.8875, 1.22, 0, 0.3325, 0.665, 0.9975, 1.33, 0.11, 0.4425, 0.775, 1.1075, 1.44, 0.22, 0.5525, 0.8875, 1.22]
SoftwareVersionssyngo MR XA30
SpacingBetweenSlices2
StationNameLRG10884
TaskNamerest
TotalReadoutTime0.0288896
TxRefAmp243.446
WipMemBlockf139d944-8f4a-4b5a-8ade-e062df939652||Sequence: R017 nxva30a/master r/d34922cc2+; Jun 27 2022 13:20:16 by eja

aor[0.0024814666666666666, 0.0021896, 0.0019328000000000001, 0.0015955333333333335]
aqi[0.007397814133333333, 0.007642447333333333, 0.011515984933333332, 0.021499726666666667]
dummy_trs0
dvarsnstd35.79051692389261
dvarsstd1.1112718473825502
dvarsvstd1.1021657981879198
efc0.5754
fber773.245
fdmean0.0730070143279597
fdnum0
fdperc0.0
fwhmavg3.793505
fwhmx3.3893
fwhmy4.00563
fwhmz3.985585
gcor[0.0055447, 0.00823127, 0.00743967, 0.00560684]
gsrx0.0040372759103775024
gsry0.10499279946088791
sizet150
sizex108
sizey108
sizez56
snr2.6703579512920075
spacingtr1.5729999542236328
spacingx2.0
spacingy2.0
spacingz2.0
summarybgk10.5147
summarybgmad18.3348
summarybgmean122.9455
summarybgmedian30.0
summarybgn490592.0
summarybgp054.0
summarybgp95660.0
summarybgstdv230.6997
summaryfgk0.8717
summaryfgmad298.601
summaryfgmean869.5953
summaryfgmedian835.0
summaryfgn162592.0
summaryfgp05429.0
summaryfgp951423.0
summaryfgstdv312.6912
tsnr43.193156314315274
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