# RELIONの定義済みラベル

提供: Eospedia

- RELION v3.0.5の以下コマンドの出力を表にしました。

$ relion_refine --print_metadata_labels

パラメータ名 | データ型 | 説明 |
---|---|---|

rlnAccumMotionEarly | double | Accumulated global motion during the first frames of the movie (in A) |

rlnAccumMotionLate | double | Accumulated global motion during the last frames of the movie (in A) |

rlnAccumMotionTotal | double | Accumulated global motion during the entire movie (in A) |

rlnAccuracyRotations | double | Estimated accuracy (in degrees) with which rotations can be assigned |

rlnAccuracyTranslations | double | Estimated accuracy (in pixels) with which translations can be assigned |

rlnAdaptiveOversampleFraction | double | Fraction of the weights that will be oversampled in a second pass of the adaptive oversampling strategy |

rlnAdaptiveOversampleOrder | int | Order of the adaptive oversampling (0=no oversampling, 1= 2x oversampling; 2= 4x oversampling, etc) |

rlnAmplitudeContrast | double | Amplitude contrast (as a fraction, i.e. 10% = 0.1) |

rlnAmplitudeCorrelationMaskedMaps | double | Correlation coefficient between amplitudes in Fourier shells of masked maps |

rlnAmplitudeCorrelationUnmaskedMaps | double | Correlation coefficient between amplitudes in Fourier shells of unmasked maps |

rlnAnglePsi | double | Third Euler, or in-plane angle (psi, in degrees) |

rlnAnglePsiFlipRatio | double | Flip ratio of bimodal psi prior (0~0.5, 0 means an ordinary prior, 0.5 means a perfect bimodal prior) |

rlnAnglePsiPrior | double | Center of the prior (in degrees) on the third Euler angle (psi) |

rlnAngleRot | double | First Euler angle (rot, in degrees) |

rlnAngleRotPrior | double | Center of the prior (in degrees) on the first Euler angle (rot) |

rlnAngleTilt | double | Second Euler angle (tilt, in degrees) |

rlnAngleTiltPrior | double | Center of the prior (in degrees) on the second Euler angle (tilt) |

rlnAngstromResolution | double | Resolution (in Angstroms) |

rlnAreaId | int | ID (i.e. a unique number) of an area (i.e. field-of-view) |

rlnAreaName | string | Name of an area (i.e. field-of-view) |

rlnAutoLocalSearchesHealpixOrder | int | Healpix order (before oversampling) from which autosampling procedure will use local angular searches |

rlnAutopickFigureOfMerit | double | Autopicking FOM for a particle |

rlnAvailableMemory | double | Available memory per computing node (i.e. per MPI-process) |

rlnAverageNrOfFrames | int | Number of movie frames that one averages over upon extraction of movie-particles |

rlnAveragePmax | double | Average value (over all images) of the maxima of the probability distributions |

rlnAverageValue | double | Average value for the pixels in an image |

rlnBeamTiltClass | int | Beam-tilt class of a particle |

rlnBeamTiltX | double | Beam tilt in the X-direction (in mrad) |

rlnBeamTiltY | double | Beam tilt in the Y-direction (in mrad) |

rlnBestResolutionThusFar | double | The highest resolution that has been obtained in this optimization thus far |

rlnBfactorUsedForSharpening | double | Applied B-factor in the sharpening of the map |

rlnBodyKeepFixed | int | Flag to indicate whether to keep a body fixed (value 1) or keep on refining it (0) |

rlnBodyMaskName | string | Name of an image that contains a [0,1] body mask for multi-body refinement |

rlnBodyReferenceName | string | Name of an image that contains the initial reference for one body of a multi-body refinement |

rlnBodyRotateDirectionX | double | X-component of axis around which to rotate this body |

rlnBodyRotateDirectionY | double | Y-component of axis around which to rotate this body |

rlnBodyRotateDirectionZ | double | Z-component of axis around which to rotate this body |

rlnBodyRotateRelativeTo | int | Number of the body relative to which this body rotates (if negative, use rlnBodyRotateDirectionXYZ) |

rlnBodySigmaAngles | double | Width of prior on all three Euler angles of a body in multibody refinement (in degrees) |

rlnBodySigmaOffset | double | Width of prior on origin offsets of a body in multibody refinement (in pixels) |

rlnBodySigmaPsi | double | Width of prior on psi angles of a body in multibody refinement (in degrees) |

rlnBodySigmaRot | double | Width of prior on rot angles of a body in multibody refinement (in degrees) |

rlnBodySigmaTilt | double | Width of prior on tilt angles of a body in multibody refinement (in degrees) |

rlnBodyStarFile | string | Name of STAR file with body masks and metadata |

rlnChangesOptimalClasses | double | The number of particles that changed their optimal clsas assignment in the last iteration |

rlnChangesOptimalOffsets | double | The average change in optimal translation in the last iteration (in pixels) |

rlnChangesOptimalOrientations | double | The average change in optimal orientation in the last iteration (in degrees) |

rlnChromaticAberration | double | Chromatic aberration (in millimeters) |

rlnClassDistribution | double | Probability Density Function of the different classes (i.e. fraction of images assigned to each class) |

rlnClassNumber | int | Class number for which a particle has its highest probability |

rlnClassPriorOffsetX | double | Prior in the X-offset for a class (in pixels) |

rlnClassPriorOffsetY | double | Prior in the Y-offset for a class (in pixels) |

rlnCoarseImageSize | int | Current size of the images to be used in the first pass of the adaptive oversampling strategy (may be smaller than the original image size) |

rlnComment | string | A metadata comment (This is treated in a special way) |

rlnConvergenceCone | double | Convergence cone (in mrad) |

rlnCoordinateX | double | X-Position of an image in a micrograph (in pixels) |

rlnCoordinateY | double | Y-Position of an image in a micrograph (in pixels) |

rlnCoordinateZ | double | Z-Position of an image in a 3D micrograph, i.e. tomogram (in pixels) |

rlnCorrectedFourierShellCorrelationPhaseRandomizedMaskedMaps | double | FSC value after masking of the randomized-phases maps |

rlnCorrelationFitGuinierPlot | double | The correlation coefficient of the fitted line through the Guinier-plot |

rlnCtfAstigmatism | double | Absolute value of the difference between defocus in U- and V-direction (in A) |

rlnCtfBfactor | double | B-factor (in A^2) that describes CTF power spectrum fall-off |

rlnCtfDataAreCtfPremultiplied | bool | Flag to indicate that the input images have been premultiplied with their CTF |

rlnCtfDataArePhaseFlipped | bool | Flag to indicate that the input images have been phase-flipped |

rlnCtfFigureOfMerit | double | Figure of merit for the fit of the CTF (not used inside relion_refine) |

rlnCtfImage | string | Name of an image with all CTF values |

rlnCtfMaxResolution | double | Estimated maximum resolution (in A) of significant CTF Thon rings |

rlnCtfScalefactor | double | Linear scale-factor on the CTF (values between 0 and 1) |

rlnCtfValidationScore | double | Gctf-based validation score for the quality of the CTF fit |

rlnCtfValue | double | Value of the Contrast Transfer Function |

rlnCurrentImageSize | int | Current size of the images used in the refinement |

rlnCurrentIteration | int | The number of the current iteration |

rlnCurrentResolution | double | Current resolution where SSNR^MAP drops below 1 (in 1/Angstroms) |

rlnDataDimensionality | int | Dimensionality of the data (2D/3D) |

rlnDataType | int | Type of data stored in an image (e.g. int, RFLOAT etc) |

rlnDefocusAngle | double | Angle between X and defocus U direction (in degrees) |

rlnDefocusU | double | Defocus in U-direction (in Angstroms, positive values for underfocus) |

rlnDefocusV | double | Defocus in V-direction (in Angstroms, positive values for underfocus) |

rlnDetectorPixelSize | double | Pixel size of the detector (in micrometers) |

rlnDiff2RandomHalves | double | Power of the differences between two independent reconstructions from random halves of the data |

rlnDifferentialPhaseResidualMaskedMaps | double | Differential Phase Residual in Fourier shells of masked maps |

rlnDifferentialPhaseResidualUnmaskedMaps | double | Differential Phase Residual in Fourier shells of unmasked maps |

rlnDoAutoRefine | bool | Flag to indicate that 3D auto-refine procedure is being used |

rlnDoCorrectCtf | bool | Flag to indicate that CTF-correction should be performed |

rlnDoCorrectMagnification | bool | Flag to indicate that (per-group) magnification correction should be performed |

rlnDoCorrectNorm | bool | Flag to indicate that (per-image) normalisation-error correction should be performed |

rlnDoCorrectScale | bool | Flag to indicate that internal (per-group) intensity-scale correction should be performed |

rlnDoFastSubsetOptimisation | bool | Use subsets of the data in the earlier iterations to speed up convergence |

rlnDoHelicalRefine | bool | Flag to indicate that helical refinement should be performed |

rlnDoIgnoreCtfUntilFirstPeak | bool | Flag to indicate that the CTFs should be ignored until their first peak |

rlnDoMapEstimation | bool | Flag to indicate that MAP estimation should be performed (otherwise ML estimation) |

rlnDoOnlyFlipCtfPhases | bool | Flag to indicate that CTF-correction should only comprise phase-flipping |

rlnDoRealignMovies | bool | Flag to indicate that individual frames of movies are being re-aligned |

rlnDoSkipAlign | bool | Flag to indicate that orientational (i.e. rotational and translational) searches will be omitted from the refinement, only marginalisation over classes will take place |

rlnDoSkipRotate | bool | Flag to indicate that rotational searches will be omitted from the refinement, only marginalisation over classes and translations will take place |

rlnDoSolventFlattening | bool | Flag to indicate that the references should be masked to set their solvent areas to a constant density |

rlnDoSolventFscCorrection | bool | Flag to indicate that the FSCs should be solvent-corrected during refinement |

rlnDoSplitRandomHalves | bool | Flag to indicate that the data should be split into two completely separate, random halves |

rlnDoStochasticGradientDescent | bool | Flag to indicate that SGD-optimisation should be performed (otherwise expectation maximisation) |

rlnDoZeroMask | bool | Flag to indicate that the surrounding solvent area in the experimental particles will be masked to zeros (by default random noise will be used |

rlnEnabled | bool | Not used in RELION, only included for backward compatibility with XMIPP selfiles |

rlnEnergyLoss | double | Energy loss (in eV) |

rlnEstimatedResolution | double | Estimated resolution (in A) for a reference |

rlnExperimentalDataStarFile | string | STAR file with metadata for the experimental images |

rlnFinalResolution | double | Final estimated resolution after postprocessing (in Angstroms) |

rlnFittedInterceptGuinierPlot | double | The fitted intercept of the Guinier-plot |

rlnFittedSlopeGuinierPlot | double | The fitted slope of the Guinier-plot |

rlnFixSigmaNoiseEstimates | bool | Flag to indicate that the estimates for the power spectra of the noise should be kept constant |

rlnFixSigmaOffsetEstimates | bool | Flag to indicate that the estimates for the stddev in the origin offsets should be kept constant |

rlnFixTauEstimates | bool | Flag to indicate that the estimates for the power spectra of the signal (i.e. the references) should be kept constant |

rlnFourierCompleteness | double | Fraction of Fourier components (per resolution shell) with SNR>1 |

rlnFourierShellCorrelation | double | FSC value (of unspecified type, e.g. masked or unmasked) |

rlnFourierShellCorrelationCorrected | double | Final FSC value: i.e. after correction based on masking of randomized-phases maps |

rlnFourierShellCorrelationMaskedMaps | double | FSC value after masking of the original maps |

rlnFourierShellCorrelationUnmaskedMaps | double | FSC value before masking of the original maps |

rlnFourierSpaceInterpolator | int | The kernel used for Fourier-space interpolation (NN=0, linear=1) |

rlnGoldStandardFsc | double | Fourier shell correlation between two independent reconstructions from random halves of the data |

rlnGroupName | string | The name of a group of images (e.g. all images from a micrograph) |

rlnGroupNrParticles | int | Number particles in a group of images |

rlnGroupNumber | int | The number of a group of images |

rlnGroupScaleCorrection | double | Intensity-scale correction for a group of images |

rlnHasConverged | bool | Flag to indicate that the optimization has converged |

rlnHasHighFscAtResolLimit | bool | Flag to indicate that the FSC at the resolution limit is significant |

rlnHasLargeSizeIncreaseIterationsAgo | int | How many iterations have passed since the last large increase in image size |

rlnHealpixOrder | int | Healpix order for the sampling of the first two Euler angles (rot, tilt) on the 3D sphere |

rlnHelicalCentralProportion | double | Only expand this central fraction of the Z axis when imposing real-space helical symmetry |

rlnHelicalKeepTiltPriorFixed | bool | Flag to indicate that helical tilt priors are kept fixed (at 90 degrees) in global angular searches |

rlnHelicalMaskTubeInnerDiameter | double | Inner diameter of helical tubes in Angstroms (for masks of helical references and particles) |

rlnHelicalMaskTubeOuterDiameter | double | Outer diameter of helical tubes in Angstroms (for masks of helical references and particles) |

rlnHelicalOffsetStep | double | Step size for the searches of offsets along helical axis (in Angstroms) |

rlnHelicalRise | double | The helical rise (translation per subunit) in Angstroms |

rlnHelicalRiseInitial | double | The initial helical rise (translation per subunit) in Angstroms before refinement |

rlnHelicalRiseInitialStep | double | Initial step of helical rise search (in Angstroms) |

rlnHelicalRiseMax | double | Maximum helical rise (in Angstroms) |

rlnHelicalRiseMin | double | Minimum helical rise (in Angstroms) |

rlnHelicalSigmaDistance | double | Sigma of distance along the helical tracks |

rlnHelicalSymmetryLocalRefinement | bool | Flag to indicate that local refinement of helical parameters should be performed |

rlnHelicalTrackLength | double | Distance from the position of this helical segment to the starting point of the tube |

rlnHelicalTubeID | int | Helical tube ID for a helical segment |

rlnHelicalTubePitch | double | Cross-over distance for a helical segment (A) |

rlnHelicalTwist | double | The helical twist (rotation per subunit) in degrees |

rlnHelicalTwistInitial | double | The intial helical twist (rotation per subunit) in degrees before refinement |

rlnHelicalTwistInitialStep | double | Initial step of helical twist search (in degrees) |

rlnHelicalTwistMax | double | Maximum helical twist (in degrees, + for right-handedness) |

rlnHelicalTwistMin | double | Minimum helical twist (in degrees, + for right-handedness) |

rlnHighresLimitExpectation | double | High-resolution-limit (in Angstrom) for the expectation step |

rlnHighresLimitSGD | double | High-resolution-limit (in Angstrom) for Stochastic Gradient Descent |

rlnIgnoreHelicalSymmetry | bool | Flag to indicate that helical symmetry is ignored in 3D reconstruction |

rlnImageDimensionality | int | Dimensionality of data stored in an image (i.e. 2 or 3) |

rlnImageId | int | ID (i.e. a unique number) of an image |

rlnImageName | string | Name of an image |

rlnImageOriginalName | string | Original name of an image |

rlnImageSize | int | Size of an image (in pixels) |

rlnImageSizeX | int | Size of an image in the X-direction (in pixels) |

rlnImageSizeY | int | Size of an image in the Y-direction (in pixels) |

rlnImageSizeZ | int | Size of an image in the Z-direction (in pixels) |

rlnImageWeight | double | Relative weight of an image |

rlnIncrementImageSize | int | Number of Fourier shells to be included beyond the resolution where SSNR^MAP drops below 1 |

rlnIs3DSampling | bool | Flag to indicate this concerns a 3D sampling |

rlnIs3DTranslationalSampling | bool | Flag to indicate this concerns a x,y,z-translational sampling |

rlnIsFlip | bool | Flag to indicate that an image should be mirrored |

rlnIsHelix | bool | Flag to indicate that helical refinement should be performed |

rlnJoinHalvesUntilThisResolution | double | Resolution (in Angstrom) to join the two random half-reconstructions to prevent their diverging orientations (for C-symmetries) |

rlnKullbackLeiblerDivergence | double | Kullback-Leibler divergence for a particle |

rlnKurtosisExcessValue | double | Kurtosis excess (4th moment - 3) for the pixel values in an image |

rlnLensStability | double | Lens stability (in ppm) |

rlnLocalSymmetryFile | string | Local symmetry description file containing list of masks and their operators |

rlnLogAmplitudesIntercept | double | Y-value for Guinier plot: the fitted plateau of the logarithm of the radially averaged amplitudes |

rlnLogAmplitudesMTFCorrected | double | Y-value for Guinier plot: the logarithm of the radially averaged amplitudes after MTF correction |

rlnLogAmplitudesOriginal | double | Y-value for Guinier plot: the logarithm of the radially averaged amplitudes of the input map |

rlnLogAmplitudesSharpened | double | Y-value for Guinier plot: the logarithm of the radially averaged amplitudes after sharpening |

rlnLogAmplitudesWeighted | double | Y-value for Guinier plot: the logarithm of the radially averaged amplitudes after FSC-weighting |

rlnLogLikeliContribution | double | Contribution of a particle to the log-likelihood target function |

rlnLogLikelihood | double | Value of the log-likelihood target function |

rlnLongitudinalDisplacement | double | Longitudinal displacement (in Angstroms) |

rlnMagnification | double | Magnification at the detector (in times) |

rlnMagnificationCorrection | double | Magnification correction value for an image |

rlnMagnificationSearchRange | double | Search range for magnification correction |

rlnMagnificationSearchStep | double | Step size for magnification correction |

rlnMaskName | string | Name of an image that contains a [0,1] mask |

rlnMatrix_1_1 | double | Matrix element (1,1) of a 3x3 matrix |

rlnMatrix_1_2 | double | Matrix element (1,2) of a 3x3 matrix |

rlnMatrix_1_3 | double | Matrix element (1,3) of a 3x3 matrix |

rlnMatrix_2_1 | double | Matrix element (2,1) of a 3x3 matrix |

rlnMatrix_2_2 | double | Matrix element (2,1) of a 3x3 matrix |

rlnMatrix_2_3 | double | Matrix element (2,1) of a 3x3 matrix |

rlnMatrix_3_1 | double | Matrix element (3,1) of a 3x3 matrix |

rlnMatrix_3_2 | double | Matrix element (3,1) of a 3x3 matrix |

rlnMatrix_3_3 | double | Matrix element (3,1) of a 3x3 matrix |

rlnMaxNumberOfPooledParticles | int | Maximum number particles that are processed together to speed up calculations |

rlnMaxValueProbDistribution | double | Maximum value of the (normalised) probability function for a particle |

rlnMaximumCoarseImageSize | int | Maximum size of the images to be used in the first pass of the adaptive oversampling strategy (may be smaller than the original image size) |

rlnMaximumValue | double | Maximum value for the pixels in an image |

rlnMicrographBinning | double | Micrograph binning factor |

rlnMicrographDefectFile | string | Name of a defect list file |

rlnMicrographDoseRate | double | Dose rate in electrons per square Angstrom per frame |

rlnMicrographEndFrame | int | End frame of a motion model |

rlnMicrographFrameNumber | int | Micrograph frame number |

rlnMicrographGainName | string | Name of a gain reference |

rlnMicrographId | int | ID (i.e. a unique number) of a micrograph |

rlnMicrographMetadata | string | Name of a micrograph metadata file |

rlnMicrographMovieName | string | Name of a micrograph movie stack |

rlnMicrographName | string | Name of a micrograph |

rlnMicrographNameNoDW | string | Name of a micrograph without dose weighting |

rlnMicrographOriginalPixelSize | double | Pixel size of original movie before binning in Angstrom/pixel. |

rlnMicrographPreExposure | double | Pre-exposure dose in electrons per square Angstrom |

rlnMicrographShiftX | double | X shift of a (patch of) micrograph |

rlnMicrographShiftY | double | Y shift of a (patch of) micrograph |

rlnMicrographStartFrame | int | Start frame of a motion model |

rlnMicrographTiltAngle | double | Tilt angle (in degrees) used to collect a micrograph |

rlnMicrographTiltAxisDirection | double | Direction of the tilt-axis (in degrees) used to collect a micrograph |

rlnMicrographTiltAxisOutOfPlane | double | Out-of-plane angle (in degrees) of the tilt-axis used to collect a micrograph (90=in-plane) |

rlnMinRadiusNnInterpolation | int | Minimum radius for NN-interpolation (in Fourier pixels), for smaller radii linear int. is used |

rlnMinimumValue | double | Minimum value for the pixels in an image |

rlnModelStarFile | string | STAR file with metadata for the model that is being refined |

rlnModelStarFile2 | string | STAR file with metadata for the second model that is being refined (from random halves of the data) |

rlnMotionModelCoeff | double | A coefficient of a motion model |

rlnMotionModelCoeffsIdx | int | Index of a coefficient of a motion model |

rlnMotionModelVersion | int | Version of micrograph motion model |

rlnMovieFrameNumber | int | Number of a movie frame |

rlnMovieFramesRunningAverage | int | Number of movie frames inside the running average that will be used for movie-refinement |

rlnMtfValue | double | Value of the detectors modulation transfer function (between 0 and 1) |

rlnNormCorrection | double | Normalisation correction value for an image |

rlnNormCorrectionAverage | double | Average value (over all images) of the normalisation correction values |

rlnNrBodies | int | The number of independent rigid bodies to be refined in multi-body refinement |

rlnNrClasses | int | The number of references (i.e. classes) to be used in refinement |

rlnNrGroups | int | The number of different groups of images (each group has its own noise spectrum, and intensity-scale correction) |

rlnNrHelicalAsymUnits | int | How many new helical asymmetric units are there in each box |

rlnNrOfFrames | int | Number of movie frames that were collected for this particle |

rlnNrOfSignificantSamples | int | Number of orientational/class assignments (for a particle) with sign.probabilities in the 1st pass of adaptive oversampling |

rlnNumberOfIterWithoutChangingAssignments | int | Number of iterations that have passed without large changes in orientation and class assignments |

rlnNumberOfIterWithoutResolutionGain | int | Number of iterations that have passed without a gain in resolution |

rlnNumberOfIterations | int | Maximum number of iterations to be performed |

rlnOffsetRange | double | Search range for the origin offsets (in Angstroms) |

rlnOffsetStep | double | Step size for the searches in the origin offsets (in Angstroms) |

rlnOrientSamplingStarFile | string | STAR file with metadata for the orientational sampling |

rlnOrientationDistribution | double | Probability Density Function of the orientations (i.e. fraction of images assigned to each orient) |

rlnOrientationalPriorMode | int | Mode for prior distributions on the orientations (0=no prior; 1=(rot,tilt,psi); 2=(rot,tilt); 3=rot; 4=tilt; 5=psi) |

rlnOrientationsID | int | ID (i.e. a unique number) for an orientation |

rlnOriginX | double | X-coordinate (in pixels) for the origin of rotation |

rlnOriginXPrior | double | Center of the prior on the X-coordinate (in pixels) for the origin of rotation |

rlnOriginY | double | Y-coordinate (in pixels) for the origin of rotation |

rlnOriginYPrior | double | Center of the prior on the X-coordinate (in pixels) for the origin of rotation |

rlnOriginZ | double | Z-coordinate (in pixels) for the origin of rotation |

rlnOriginZPrior | double | Center of the prior on the X-coordinate (in pixels) for the origin of rotation |

rlnOriginalImageSize | int | Original size of the images (in pixels) |

rlnOriginalParticleName | string | Original name for a particles |

rlnOutputRootName | string | Rootname for all output files (this may include a directory structure, which should then exist) |

rlnOverallAccuracyRotations | double | Overall accuracy of the rotational assignments (in degrees) |

rlnOverallAccuracyTranslations | double | Overall accuracy of the translational assignments (in pixels) |

rlnOverallFourierCompleteness | double | Fraction of all Fourier components up to the current resolution with SNR>1 |

rlnPaddingFactor | double | Oversampling factor for Fourier transforms of the references |

rlnParticleDiameter | double | Diameter of the circular mask to be applied to all experimental images (in Angstroms) |

rlnParticleFigureOfMerit | double | Developmental FOM for a particle |

rlnParticleId | int | ID (i.e. a unique number) for a particle |

rlnParticleName | string | Name for a particle |

rlnParticleNumber | int | Number of particles |

rlnParticleSelectZScore | double | Sum of Z-scores from particle_select. High Z-scores are likely to be outliers. |

rlnPerFrameCumulativeWeight | double | Sum of the resolution-dependent relative weights from the first frame until the given frame |

rlnPerFrameRelativeWeight | double | The resolution-dependent relative weights for a given frame |

rlnPhaseShift | double | Phase-shift from a phase-plate (in degrees) |

rlnPipeLineEdgeFromNode | string | Name of the origin of an edge |

rlnPipeLineEdgeProcess | string | Name of the destination of an edge |

rlnPipeLineEdgeToNode | string | Name of the to-Node in an edge |

rlnPipeLineJobCounter | int | Number of the last job in the pipeline |

rlnPipeLineNodeName | string | Name of a Node in the pipeline |

rlnPipeLineNodeType | int | Type of a Node in the pipeline |

rlnPipeLineProcessAlias | string | Alias of a Process in the pipeline |

rlnPipeLineProcessName | string | Name of a Process in the pipeline |

rlnPipeLineProcessStatus | int | Status of a Process in the pipeline (running, scheduled, finished or cancelled) |

rlnPipeLineProcessType | int | Type of a Process in the pipeline |

rlnPixelSize | double | Size of the pixels in the references and images (in Angstroms) |

rlnPsiStep | double | Step size (in degrees) for the sampling of the in-plane rotation angle (psi) |

rlnRadiusMaskExpImages | int | Radius of the circular mask to be applied to all experimental images (in Angstroms) |

rlnRadiusMaskMap | int | Radius of the spherical mask to be applied to all references (in Angstroms) |

rlnRandomSeed | int | Seed (i.e. a number) for the random number generator |

rlnRandomSubset | int | Random subset to which this particle belongs |

rlnRandomiseFrom | double | Resolution (in A) from which the phases are randomised in the postprocessing step |

rlnReconstructImageName | string | Name of an image to be used for reconstruction only |

rlnReferenceDimensionality | int | Dimensionality of the references (2D/3D) |

rlnReferenceImage | string | Name of a reference image |

rlnReferenceSigma2 | double | Spherical average of the estimated power in the noise of a reference |

rlnReferenceSpectralPower | double | Spherical average of the power of the reference |

rlnReferenceTau2 | double | Spherical average of the estimated power in the signal of a reference |

rlnRefsAreCtfCorrected | bool | Flag to indicate that the input references have been CTF-amplitude corrected |

rlnResolution | double | Resolution (in 1/Angstroms) |

rlnResolutionInversePixel | double | Resolution (in 1/pixel, Nyquist = 0.5) |

rlnResolutionSquared | double | X-value for Guinier plot: squared resolution in 1/Angstrom^2 |

rlnSGDGradientImage | string | Name of image containing the SGD gradient |

rlnSamplingPerturbFactor | double | Factor for random perturbation on the orientational sampling (between 0 no perturbation and 1 very strong perturbation) |

rlnSamplingPerturbInstance | double | Random instance of the random perturbation on the orientational sampling |

rlnSamplingRate | double | Sampling rate of an image (in Angstrom/pixel) |

rlnSamplingRateX | double | Sampling rate in X-direction of an image (in Angstrom/pixel) |

rlnSamplingRateY | double | Sampling rate in Y-direction of an image (in Angstrom/pixel) |

rlnSamplingRateZ | double | Sampling rate in Z-direction of an image (in Angstrom/pixel) |

rlnSelected | int | Flag whether an entry in a metadatatable is selected (1) in the viewer or not (0) |

rlnSgdFinalIterations | int | Number of final SGD iterations (at rlnSgdFinalResolution and with rlnSgdFinalSubsetSize) |

rlnSgdFinalResolution | double | Resolution (in A) to use during the final SGD iterations |

rlnSgdFinalSubsetSize | int | Number of particles in a mini-batch (subset) during the final SGD iteration |

rlnSgdInBetweenIterations | int | Number of SGD iteration in between the initial ones to the final ones (with linear interpolation of resolution and subset size) |

rlnSgdInitialIterations | int | Number of initial SGD iterations (at rlnSgdInitialResolution and with rlnSgdInitialSubsetSize) |

rlnSgdInitialResolution | double | Resolution (in A) to use during the initial SGD iterations |

rlnSgdInitialSubsetSize | int | Number of particles in a mini-batch (subset) during the initial SGD iterations |

rlnSgdMaxSubsets | int | Stop SGD after doing this many subsets (possibly spanning more than 1 iteration) |

rlnSgdMuFactor | double | The mu-parameter that controls the momentum of the SGD gradients |

rlnSgdSigma2FudgeHalflife | int | After processing this many particles the multiplicative factor for the noise variance will have halved |

rlnSgdSigma2FudgeInitial | double | The variance of the noise will initially be multiplied with this value (larger than 1) |

rlnSgdSkipAnneal | bool | Option to switch off annealing of multiple references in SGD |

rlnSgdStepsize | double | Stepsize in SGD updates) |

rlnSgdSubsetSize | int | The number of particles in the random subsets for SGD |

rlnSgdWriteEverySubset | int | Every this many iterations the model is written to disk in SGD |

rlnSigma2Noise | double | Spherical average of the standard deviation in the noise (sigma) |

rlnSigmaOffsets | double | Standard deviation in the origin offsets (in Angstroms) |

rlnSigmaPriorPsiAngle | double | Standard deviation of the prior on the psi (i.e. third Euler) angle |

rlnSigmaPriorRotAngle | double | Standard deviation of the prior on the rot (i.e. first Euler) angle |

rlnSigmaPriorTiltAngle | double | Standard deviation of the prior on the tilt (i.e. second Euler) angle |

rlnSignalToNoiseRatio | double | Spectral signal-to-noise ratio for a reference |

rlnSkewnessValue | double | Skewness (3rd moment) for the pixel values in an image |

rlnSmallestChangesClasses | int | Smallest changes thus far in the optimal class assignments (in numer of particles). |

rlnSmallestChangesOffsets | double | Smallest changes thus far in the optimal offset assignments (in pixels). |

rlnSmallestChangesOrientations | double | Smallest changes thus far in the optimal orientation assignments (in degrees). |

rlnSolventMask2Name | string | Name of a secondary solvent mask (e.g. to flatten density inside an icosahedral virus) |

rlnSolventMaskName | string | Name of an image that contains a (possibly soft) mask for the solvent area (values=0 for solvent, values =1 for protein) |

rlnSortedIndex | int | Index of a metadata entry after sorting (first sorted index is 0). |

rlnSpectralIndex | int | Spectral index (i.e. distance in pixels to the origin in Fourier space) |

rlnSpectralOrientabilityContribution | double | Spectral SNR contribution to the orientability of individual particles |

rlnSphericalAberration | double | Spherical aberration (in millimeters) |

rlnSsnrMap | double | Spectral signal-to-noise ratio as defined for MAP estimation (SSNR^MAP) |

rlnStandardDeviationValue | double | Standard deviation for the pixel values in an image |

rlnStarFileMovieParticles | string | Filename of a STAR file with movie-particles in it |

rlnSymmetryGroup | string | Symmetry group (e.g., C1, D7, I2, I5, etc.) |

rlnTau2FudgeFactor | double | Regularisation parameter with which estimates for the power in the references will be multiplied (T in original paper) |

rlnTauSpectrumName | string | Name of a STAR file that holds a tau2-spectrum |

rlnTiltAngleLimit | double | Values to which to limit the tilt angles (positive for keeping side views, negative for keeping top views) |

rlnTransversalDisplacement | double | Transversal displacement (in Angstroms) |

rlnUnfilteredMapHalf1 | string | Name of the unfiltered map from halfset 1 |

rlnUnfilteredMapHalf2 | string | Name of the unfiltered map from halfset 2 |

rlnUseTooCoarseSampling | bool | Flag to indicate that the angular sampling on the sphere will be one step coarser than needed to speed up calculations |

rlnVoltage | double | Voltage of the microscope (in kV) |

rlnWidthMaskEdge | int | Width (in pixels) of the soft edge for spherical/circular masks to be used for solvent flattening |