Difference between revisions of "List of command"
From EosPedia
(Created page with "== Alphabetical Command List == *CheckCommonLineData *CheckOfOrientation *CheckOrientationByDegree *CommonLineCalculation *CommonLineRankCalc_k *[[Descart...") |
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| + | [[Command]]s in [[Eos]] are shown here in the alphabetical order. For functions of a command, refer to [[Functional Order of Commands| here]]. | ||
| + | *When [[:File:Eospedia.zip|Shell script (to be written) ]]is used, you can move to the page of your command by inputting on the "terminal". | ||
| + | *[[templateCommandWiki = a template for writing a help page for a command (to be written)]] | ||
| + | *This command list is produced by using [[:File:doc_comlist.sh.zip|this shell script (to be written)]]. | ||
| + | |||
== Alphabetical Command List == | == Alphabetical Command List == | ||
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*[[anglediffcalc]] | *[[anglediffcalc]] | ||
*[[anglediffchk]] | *[[anglediffchk]] | ||
| + | *[[angleMatchTest_k]] | ||
*[[array2mrc]] | *[[array2mrc]] | ||
*[[bin2mrc]] | *[[bin2mrc]] | ||
| + | *[[bmp2mrc]] | ||
| + | *[[bmpFileInfo]] | ||
*[[calcCommonLine]] | *[[calcCommonLine]] | ||
| + | *[[CheckCommonLineData]] | ||
| + | *[[CheckOfOrientation]] | ||
| + | *[[CheckOrientationByDegree]] | ||
*[[clusterLog2ToLog]] | *[[clusterLog2ToLog]] | ||
*[[clusterLogASCII2Binary]] | *[[clusterLogASCII2Binary]] | ||
*[[clusterShow]] | *[[clusterShow]] | ||
| + | *[[CommonLineCalculation]] | ||
| + | *[[CommonLineRankCalc_k]] | ||
*[[commonLinesSearchByVoting]] | *[[commonLinesSearchByVoting]] | ||
*[[coordRotation]] | *[[coordRotation]] | ||
| Line 60: | Line 48: | ||
*[[dcdTimeSeriesBehavior]] | *[[dcdTimeSeriesBehavior]] | ||
*[[defocusDeterminationFromThonRing]] | *[[defocusDeterminationFromThonRing]] | ||
| + | *[[Descartes2Polar]] | ||
| + | *[[Display2]] | ||
| + | *[[Display3]] | ||
*[[dos2unix]] | *[[dos2unix]] | ||
*[[electronWaveLength]] | *[[electronWaveLength]] | ||
| Line 65: | Line 56: | ||
*[[energyTransferModelCheck]] | *[[energyTransferModelCheck]] | ||
*[[energyTransferModelResultCheck]] | *[[energyTransferModelResultCheck]] | ||
| + | *[[Eos]] | ||
| + | *[[eosPointRotation]] | ||
| + | *[[EvaluateCorrelationMapwithCommonLine]] | ||
| + | *[[FETmapOrientationSearchBySimultaneousFitting]] | ||
| + | *[[FETOrientationSearchByAnnealing]] | ||
| + | *[[FETOrientationSearchByFeatureAlignment]] | ||
| + | *[[FETsmallMapSetCreate_forSimultaneousMinimization]] | ||
*[[fft2d]] | *[[fft2d]] | ||
| + | *[[geogeoge]] | ||
*[[gmolvie]] | *[[gmolvie]] | ||
*[[hf2000Init]] | *[[hf2000Init]] | ||
*[[hf2000LenzCurrent]] | *[[hf2000LenzCurrent]] | ||
*[[hf2000SpecimenPosition]] | *[[hf2000SpecimenPosition]] | ||
| + | *[[hidaka2009]] | ||
*[[homology2PG]] | *[[homology2PG]] | ||
*[[hostCondition]] | *[[hostCondition]] | ||
| − | |||
*[[imagesClustering]] | *[[imagesClustering]] | ||
*[[imagesView]] | *[[imagesView]] | ||
| + | *[[imageView]] | ||
*[[imodst2mrc]] | *[[imodst2mrc]] | ||
*[[ip2mrc]] | *[[ip2mrc]] | ||
*[[khorosFilterGenerate]] | *[[khorosFilterGenerate]] | ||
*[[largeIPInfo]] | *[[largeIPInfo]] | ||
| + | *[[LCalculationForOrientationSearch]] | ||
*[[ll2ltlg]] | *[[ll2ltlg]] | ||
*[[llDataAverage]] | *[[llDataAverage]] | ||
*[[llDataAxisSearch]] | *[[llDataAxisSearch]] | ||
| − | |||
*[[llDataCompare]] | *[[llDataCompare]] | ||
*[[llDataContributionCalcDifferentN]] | *[[llDataContributionCalcDifferentN]] | ||
| + | *[[llDataCTFCompensate]] | ||
*[[llDataDump]] | *[[llDataDump]] | ||
*[[llDataEquatorAdd]] | *[[llDataEquatorAdd]] | ||
| Line 98: | Line 99: | ||
*[[llDataRescaling]] | *[[llDataRescaling]] | ||
*[[llDataResolutionCheck]] | *[[llDataResolutionCheck]] | ||
| + | *[[llDatarMaxLimit]] | ||
*[[llDataRotation]] | *[[llDataRotation]] | ||
*[[llDataSelectionEstimation]] | *[[llDataSelectionEstimation]] | ||
*[[llDataSeparate]] | *[[llDataSeparate]] | ||
*[[llDataWeightSet]] | *[[llDataWeightSet]] | ||
| − | |||
*[[llExtract]] | *[[llExtract]] | ||
*[[llExtractCtfinfFileCreate]] | *[[llExtractCtfinfFileCreate]] | ||
| Line 116: | Line 117: | ||
*[[ltlgDataInfo]] | *[[ltlgDataInfo]] | ||
*[[mallocCheck]] | *[[mallocCheck]] | ||
| + | *[[marker2Dto3DEstimator]] | ||
*[[matrix3DEulerAngleTransform]] | *[[matrix3DEulerAngleTransform]] | ||
*[[matrix3DFromEulerAngle]] | *[[matrix3DFromEulerAngle]] | ||
| Line 129: | Line 131: | ||
*[[molvieProjection]] | *[[molvieProjection]] | ||
*[[molvieViewer]] | *[[molvieViewer]] | ||
| + | *[[mrc2dsn6]] | ||
*[[mrc2Dto3D]] | *[[mrc2Dto3D]] | ||
*[[mrc2Dto3DforVariation]] | *[[mrc2Dto3DforVariation]] | ||
| − | |||
*[[mrc2fld]] | *[[mrc2fld]] | ||
*[[mrc2gif]] | *[[mrc2gif]] | ||
| Line 137: | Line 139: | ||
*[[mrc2lattice]] | *[[mrc2lattice]] | ||
*[[mrc2map]] | *[[mrc2map]] | ||
| + | *[[mrc2mrc]] | ||
*[[mrc2pov]] | *[[mrc2pov]] | ||
*[[mrc2tiff]] | *[[mrc2tiff]] | ||
| Line 149: | Line 152: | ||
*[[mrcFFTFibreDiagram]] | *[[mrcFFTFibreDiagram]] | ||
*[[mrcFFTFiltering]] | *[[mrcFFTFiltering]] | ||
| − | |||
*[[mrcFFTInfo]] | *[[mrcFFTInfo]] | ||
| + | *[[mrcFFTIQEstimation]] | ||
*[[mrcFFTLayerLineCheck]] | *[[mrcFFTLayerLineCheck]] | ||
*[[mrcFFTMedianFilter]] | *[[mrcFFTMedianFilter]] | ||
| + | *[[mrcFFTplainreduce]] | ||
*[[mrcFFTProjection]] | *[[mrcFFTProjection]] | ||
*[[mrcFFTResampling]] | *[[mrcFFTResampling]] | ||
| Line 159: | Line 163: | ||
*[[mrcFFTSpectrum]] | *[[mrcFFTSpectrum]] | ||
*[[mrcFFTXFiltering]] | *[[mrcFFTXFiltering]] | ||
| − | |||
*[[mrcFTMeridianEquatorRedece]] | *[[mrcFTMeridianEquatorRedece]] | ||
| − | |||
*[[mrcImage1dAverageByCorrelation]] | *[[mrcImage1dAverageByCorrelation]] | ||
*[[mrcImage1dCutAverage]] | *[[mrcImage1dCutAverage]] | ||
| + | *[[mrcImage1DProjectionfrom2D]] | ||
*[[mrcImage1dShiftAverageByAnnealing]] | *[[mrcImage1dShiftAverageByAnnealing]] | ||
*[[mrcImage1dShiftByCorrelation]] | *[[mrcImage1dShiftByCorrelation]] | ||
| Line 180: | Line 183: | ||
*[[mrcImageAddValue]] | *[[mrcImageAddValue]] | ||
*[[mrcImageAreaCalc]] | *[[mrcImageAreaCalc]] | ||
| + | *[[mrcImageAsProbability]] | ||
*[[mrcImageAssignedToTFofPDB]] | *[[mrcImageAssignedToTFofPDB]] | ||
*[[mrcImageAutoCorrelationWithWindowing]] | *[[mrcImageAutoCorrelationWithWindowing]] | ||
| Line 189: | Line 193: | ||
*[[mrcImageAverage]] | *[[mrcImageAverage]] | ||
*[[mrcImageBandPassFilter]] | *[[mrcImageBandPassFilter]] | ||
| + | *[[mrcImageBilateralFilter]] | ||
*[[mrcImageBinalization]] | *[[mrcImageBinalization]] | ||
*[[mrcImageBlockMerge]] | *[[mrcImageBlockMerge]] | ||
| + | *[[mrcImageBottomHatTransform]] | ||
*[[mrcImageBoundaryInfo]] | *[[mrcImageBoundaryInfo]] | ||
*[[mrcImageBtest]] | *[[mrcImageBtest]] | ||
*[[mrcImageCCDNoiseRemove]] | *[[mrcImageCCDNoiseRemove]] | ||
| − | |||
| − | |||
| − | |||
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*[[mrcImageCenterDensityChange]] | *[[mrcImageCenterDensityChange]] | ||
*[[mrcImageCenterGet]] | *[[mrcImageCenterGet]] | ||
*[[mrcImageCenterOfMassCalculate]] | *[[mrcImageCenterOfMassCalculate]] | ||
*[[mrcImageCircumferentialProjection]] | *[[mrcImageCircumferentialProjection]] | ||
| + | *[[mrcImageClosing]] | ||
*[[mrcImageClusterAnalysis]] | *[[mrcImageClusterAnalysis]] | ||
*[[mrcImageColoring]] | *[[mrcImageColoring]] | ||
| Line 210: | Line 211: | ||
*[[mrcImageConnectivityNumberCalc]] | *[[mrcImageConnectivityNumberCalc]] | ||
*[[mrcImageContourSurfaceCreate]] | *[[mrcImageContourSurfaceCreate]] | ||
| + | *[[mrcImageConvolution]] | ||
*[[mrcImageCoordinateChange]] | *[[mrcImageCoordinateChange]] | ||
*[[mrcImageCoreImageCalc]] | *[[mrcImageCoreImageCalc]] | ||
| Line 217: | Line 219: | ||
*[[mrcImageCorrelationWithCTFCompensation]] | *[[mrcImageCorrelationWithCTFCompensation]] | ||
*[[mrcImageCrystalCreate]] | *[[mrcImageCrystalCreate]] | ||
| + | *[[mrcImageCTFCompensation]] | ||
| + | *[[mrcImageCTFCompensationForTiltImage]] | ||
| + | *[[mrcImageCTFDetermination]] | ||
| + | *[[mrcImageCTFObservation]] | ||
| + | *[[mrcImageCTFSN]] | ||
*[[mrcImageCutAndSetInArray]] | *[[mrcImageCutAndSetInArray]] | ||
| + | *[[mrcImageCVE]] | ||
*[[mrcImageCylinderSection]] | *[[mrcImageCylinderSection]] | ||
*[[mrcImageDeadPixelCorrection]] | *[[mrcImageDeadPixelCorrection]] | ||
| + | *[[mrcImageDeconvolution]] | ||
*[[mrcImageDensityChangeEstimation]] | *[[mrcImageDensityChangeEstimation]] | ||
*[[mrcImageDensityInfo]] | *[[mrcImageDensityInfo]] | ||
*[[mrcImageDensityNormalization]] | *[[mrcImageDensityNormalization]] | ||
*[[mrcImageDensityNormalizationByImage]] | *[[mrcImageDensityNormalizationByImage]] | ||
| + | *[[mrcImageDilation]] | ||
*[[mrcImageDisplayDensityAsTempFactor]] | *[[mrcImageDisplayDensityAsTempFactor]] | ||
*[[mrcImageDistanceConversion]] | *[[mrcImageDistanceConversion]] | ||
| + | *[[mrcImageDividedByFile]] | ||
*[[mrcImageDivideInfoForTomography]] | *[[mrcImageDivideInfoForTomography]] | ||
*[[mrcImageDivideIntoTwoImages]] | *[[mrcImageDivideIntoTwoImages]] | ||
| + | *[[mrcImageEdgeEnhancement]] | ||
*[[mrcImageEdgeImageGet]] | *[[mrcImageEdgeImageGet]] | ||
*[[mrcImageEnhancementWithFuzzySets]] | *[[mrcImageEnhancementWithFuzzySets]] | ||
| + | *[[mrcImageErosion]] | ||
*[[mrcImageEstimateTiltImage]] | *[[mrcImageEstimateTiltImage]] | ||
*[[mrcImageExpression]] | *[[mrcImageExpression]] | ||
| + | *[[mrcImageFeatureExtraction]] | ||
*[[mrcImageFFT]] | *[[mrcImageFFT]] | ||
*[[mrcImageFFTLayerLineExtraction]] | *[[mrcImageFFTLayerLineExtraction]] | ||
| − | |||
| − | |||
| − | |||
*[[mrcImageFilamentSearch]] | *[[mrcImageFilamentSearch]] | ||
*[[mrcImageFilterCreate]] | *[[mrcImageFilterCreate]] | ||
*[[mrcImageFilteringbyFile]] | *[[mrcImageFilteringbyFile]] | ||
*[[mrcImageFilteringbyFileForVariance]] | *[[mrcImageFilteringbyFileForVariance]] | ||
| + | *[[mrcImageFloating]] | ||
| + | *[[mrcImageFOMCalc]] | ||
*[[mrcImageFourierPowerSpectrum]] | *[[mrcImageFourierPowerSpectrum]] | ||
*[[mrcImageFourierShellCorrelation]] | *[[mrcImageFourierShellCorrelation]] | ||
*[[mrcImageFractalFourierShellCorrelation]] | *[[mrcImageFractalFourierShellCorrelation]] | ||
*[[mrcImageFractalFrourierShellCorrelation]] | *[[mrcImageFractalFrourierShellCorrelation]] | ||
| + | *[[mrcImageFTest]] | ||
*[[mrcImageGaussDisc]] | *[[mrcImageGaussDisc]] | ||
*[[mrcImageGaussSphere]] | *[[mrcImageGaussSphere]] | ||
| Line 254: | Line 268: | ||
*[[mrcImageHelicalMaskingBy2DImage]] | *[[mrcImageHelicalMaskingBy2DImage]] | ||
*[[mrcImageHelicalProjection]] | *[[mrcImageHelicalProjection]] | ||
| − | |||
*[[mrcImageHighlighting]] | *[[mrcImageHighlighting]] | ||
| + | *[[mrcImageHighPassFilter]] | ||
*[[mrcImageInfo]] | *[[mrcImageInfo]] | ||
*[[mrcImageInverseRadonTransform]] | *[[mrcImageInverseRadonTransform]] | ||
*[[mrcImageLabeling]] | *[[mrcImageLabeling]] | ||
| + | *[[mrcImageLogicalOperation]] | ||
*[[mrcImageLowPassFilter]] | *[[mrcImageLowPassFilter]] | ||
*[[mrcImageMagnificationChange]] | *[[mrcImageMagnificationChange]] | ||
| Line 280: | Line 295: | ||
*[[mrcImageMultiplying]] | *[[mrcImageMultiplying]] | ||
*[[mrcImageMultiplyingbyFile]] | *[[mrcImageMultiplyingbyFile]] | ||
| − | |||
*[[mrcImageNeuralNetParticleExtraction]] | *[[mrcImageNeuralNetParticleExtraction]] | ||
*[[mrcImageNeuralNetParticleLearning]] | *[[mrcImageNeuralNetParticleLearning]] | ||
*[[mrcImageNfoldAxisSearch]] | *[[mrcImageNfoldAxisSearch]] | ||
| + | *[[mrcImageNLMeansFilter]] | ||
*[[mrcImageNoiseAdd]] | *[[mrcImageNoiseAdd]] | ||
*[[mrcImageNoiseCreate]] | *[[mrcImageNoiseCreate]] | ||
| Line 293: | Line 308: | ||
*[[mrcImageOddBoxel]] | *[[mrcImageOddBoxel]] | ||
*[[mrcImageOneLineSimilarityCalc]] | *[[mrcImageOneLineSimilarityCalc]] | ||
| + | *[[mrcImageOpening]] | ||
*[[mrcImageOrientationSearch]] | *[[mrcImageOrientationSearch]] | ||
*[[mrcImageOrientationSearchByHigherSelection]] | *[[mrcImageOrientationSearchByHigherSelection]] | ||
*[[mrcImageOrientationSearchByHybridization]] | *[[mrcImageOrientationSearchByHybridization]] | ||
*[[mrcImageOrientationSearchBySimultaneousMinimization]] | *[[mrcImageOrientationSearchBySimultaneousMinimization]] | ||
| − | |||
*[[mrcImagePad]] | *[[mrcImagePad]] | ||
| + | *[[mrcImagePanoramaCreate]] | ||
*[[mrcImageParticleCandidateExtract]] | *[[mrcImageParticleCandidateExtract]] | ||
| + | *[[mrcImagePCA]] | ||
| + | *[[mrcImagepdbFileReduce]] | ||
*[[mrcImagePeakSearch]] | *[[mrcImagePeakSearch]] | ||
*[[mrcImagePhaseCTFCompensationFromCTFINFO]] | *[[mrcImagePhaseCTFCompensationFromCTFINFO]] | ||
| Line 309: | Line 327: | ||
*[[mrcImageProjection]] | *[[mrcImageProjection]] | ||
*[[mrcImagePut3D]] | *[[mrcImagePut3D]] | ||
| − | |||
| − | |||
| − | |||
| − | |||
*[[mrcImageRadialDistribution]] | *[[mrcImageRadialDistribution]] | ||
*[[mrcImageRadonTransform]] | *[[mrcImageRadonTransform]] | ||
| + | *[[mrcImageRandomParticlesImageCreate]] | ||
*[[mrcImageRealValueAdd]] | *[[mrcImageRealValueAdd]] | ||
*[[mrcImageRectangleGet]] | *[[mrcImageRectangleGet]] | ||
| Line 324: | Line 339: | ||
*[[mrcImageResolutionEstimateForFilaments]] | *[[mrcImageResolutionEstimateForFilaments]] | ||
*[[mrcImageReverse]] | *[[mrcImageReverse]] | ||
| + | *[[mrcImageROI]] | ||
| + | *[[mrcImageROI3D]] | ||
| + | *[[mrcImageROIs]] | ||
| + | *[[mrcImageROItoPCAoutputImage]] | ||
*[[mrcImageRotation]] | *[[mrcImageRotation]] | ||
*[[mrcImageRotation3D]] | *[[mrcImageRotation3D]] | ||
| − | |||
*[[mrcImageSamplingUnitChange]] | *[[mrcImageSamplingUnitChange]] | ||
*[[mrcImageScalarAdd]] | *[[mrcImageScalarAdd]] | ||
*[[mrcImageSectionGet]] | *[[mrcImageSectionGet]] | ||
*[[mrcImageSetFunction]] | *[[mrcImageSetFunction]] | ||
| + | *[[mrcImageShapeOrientation]] | ||
*[[mrcImageShapePCA]] | *[[mrcImageShapePCA]] | ||
| + | *[[mrcImageShapePCAFit]] | ||
*[[mrcImageShift]] | *[[mrcImageShift]] | ||
*[[mrcImageShiftFollowingGC]] | *[[mrcImageShiftFollowingGC]] | ||
| Line 342: | Line 362: | ||
*[[mrcImageSinogramFFT]] | *[[mrcImageSinogramFFT]] | ||
*[[mrcImageSmoothing]] | *[[mrcImageSmoothing]] | ||
| + | *[[mrcImageSN]] | ||
*[[mrcImageSolventFlattening]] | *[[mrcImageSolventFlattening]] | ||
*[[mrcImageSphere]] | *[[mrcImageSphere]] | ||
| + | *[[mrcImageSphereCheck]] | ||
*[[mrcImageSplit]] | *[[mrcImageSplit]] | ||
*[[mrcImageSquare]] | *[[mrcImageSquare]] | ||
| + | *[[mrcImagesSinogramCorrelation]] | ||
*[[mrcImageStack]] | *[[mrcImageStack]] | ||
*[[mrcImageStandardDeviation]] | *[[mrcImageStandardDeviation]] | ||
| + | *[[mrcImagestoRef]] | ||
*[[mrcImageSubtraction]] | *[[mrcImageSubtraction]] | ||
*[[mrcImageSuperResolution]] | *[[mrcImageSuperResolution]] | ||
| Line 353: | Line 377: | ||
*[[mrcImageSymmetryCentreFind]] | *[[mrcImageSymmetryCentreFind]] | ||
*[[mrcImageSymmetryFind]] | *[[mrcImageSymmetryFind]] | ||
| − | |||
*[[mrcImageTfunction]] | *[[mrcImageTfunction]] | ||
*[[mrcImageTiltAxisSearch]] | *[[mrcImageTiltAxisSearch]] | ||
*[[mrcImageTiltAxisSearchHelp]] | *[[mrcImageTiltAxisSearchHelp]] | ||
*[[mrcImageToNAMDConstantForces]] | *[[mrcImageToNAMDConstantForces]] | ||
| + | *[[mrcImageTopHatTransform]] | ||
| + | *[[mrcImageToPointsSet]] | ||
*[[mrcImageTrans]] | *[[mrcImageTrans]] | ||
*[[mrcImageTransformDescartesIntoPolar]] | *[[mrcImageTransformDescartesIntoPolar]] | ||
*[[mrcImageTransformSign]] | *[[mrcImageTransformSign]] | ||
*[[mrcImageTranspose]] | *[[mrcImageTranspose]] | ||
| + | *[[mrcImageTTest]] | ||
*[[mrcImageTwoImageTest]] | *[[mrcImageTwoImageTest]] | ||
*[[mrcImageUnbentROI]] | *[[mrcImageUnbentROI]] | ||
| Line 371: | Line 397: | ||
*[[mrcImageWindowing]] | *[[mrcImageWindowing]] | ||
*[[mrcImageZPad]] | *[[mrcImageZPad]] | ||
| − | *[[ | + | *[[mrcImateToPointsSet]] |
| − | + | ||
| − | + | ||
*[[mrcInfo]] | *[[mrcInfo]] | ||
*[[mrcInfoSet]] | *[[mrcInfoSet]] | ||
| Line 381: | Line 405: | ||
*[[mrcMirrorImageCreate]] | *[[mrcMirrorImageCreate]] | ||
*[[mrcRadon2Dto3D]] | *[[mrcRadon2Dto3D]] | ||
| + | *[[mrcRefCoreGet]] | ||
*[[mrcRefCorEstimate]] | *[[mrcRefCorEstimate]] | ||
*[[mrcRefCorModify]] | *[[mrcRefCorModify]] | ||
| − | |||
*[[mrcRefCorrelation]] | *[[mrcRefCorrelation]] | ||
*[[mrcRefCorrelationConv]] | *[[mrcRefCorrelationConv]] | ||
| Line 395: | Line 419: | ||
*[[mrcRefImagepwzCorModify]] | *[[mrcRefImagepwzCorModify]] | ||
*[[mrcRefImagepwzCorPeakFind]] | *[[mrcRefImagepwzCorPeakFind]] | ||
| − | |||
*[[mrcRefImagepwzCorrelation]] | *[[mrcRefImagepwzCorrelation]] | ||
*[[mrcRefImagepwzCorrelationByFFT]] | *[[mrcRefImagepwzCorrelationByFFT]] | ||
| + | *[[mrcRefImagepwzCorSmoothing]] | ||
*[[mrcRefImagexaFit]] | *[[mrcRefImagexaFit]] | ||
*[[mrcRefLowPassFilter]] | *[[mrcRefLowPassFilter]] | ||
| Line 416: | Line 440: | ||
*[[obj3Don2DImageView]] | *[[obj3Don2DImageView]] | ||
*[[openGLTest]] | *[[openGLTest]] | ||
| − | |||
*[[pdb2bender]] | *[[pdb2bender]] | ||
*[[pdb2mrc]] | *[[pdb2mrc]] | ||
*[[pdb2mrc2d]] | *[[pdb2mrc2d]] | ||
*[[pdb2mrc2dWithCTF]] | *[[pdb2mrc2dWithCTF]] | ||
| + | *[[pdb2SketchMacro]] | ||
*[[pdb2ucd]] | *[[pdb2ucd]] | ||
*[[pdbAtomSection]] | *[[pdbAtomSection]] | ||
| Line 433: | Line 457: | ||
*[[pdbInfo]] | *[[pdbInfo]] | ||
*[[pdbListRMSDCalc]] | *[[pdbListRMSDCalc]] | ||
| + | *[[pdbListVectorCalc]] | ||
*[[pdbMatrixCreate]] | *[[pdbMatrixCreate]] | ||
*[[pdbMolecularInterfaceFind]] | *[[pdbMolecularInterfaceFind]] | ||
| Line 460: | Line 485: | ||
*[[pgSelect]] | *[[pgSelect]] | ||
*[[pointAffineTransform]] | *[[pointAffineTransform]] | ||
| + | *[[pointsSetToPDB]] | ||
| + | *[[Polar2Descartes]] | ||
| + | *[[ProjectionDirectionMapCreate]] | ||
*[[psFileMerge]] | *[[psFileMerge]] | ||
*[[psFilePageMerge]] | *[[psFilePageMerge]] | ||
| Line 466: | Line 494: | ||
*[[rasmonyo]] | *[[rasmonyo]] | ||
*[[smolet]] | *[[smolet]] | ||
| + | *[[StereoDisplay]] | ||
| + | *[[test]] | ||
| + | *[[TestForLcalculationOfOrientationSearchBySimultaneousMinimization]] | ||
*[[tgaInfo]] | *[[tgaInfo]] | ||
*[[tiff2mrc]] | *[[tiff2mrc]] | ||
| Line 471: | Line 502: | ||
*[[vector2pdb]] | *[[vector2pdb]] | ||
*[[vectorImageNearestNeighborMethod]] | *[[vectorImageNearestNeighborMethod]] | ||
| + | *[[Visualmake]] | ||
| + | *[[WeightCalculationOfCommonLineSearch]] | ||
| + | *[[WeightCalculationOfCommonLineSearchByAllSinogram]] | ||
| + | *[[WeigthCaluculationOfCommonLineCalculation]] | ||
Latest revision as of 07:01, 7 May 2017
Commands in Eos are shown here in the alphabetical order. For functions of a command, refer to here.
- When Shell script (to be written) is used, you can move to the page of your command by inputting on the "terminal".
- templateCommandWiki = a template for writing a help page for a command (to be written)
- This command list is produced by using this shell script (to be written).
Alphabetical Command List
- anglediffcalc
- anglediffchk
- angleMatchTest_k
- array2mrc
- bin2mrc
- bmp2mrc
- bmpFileInfo
- calcCommonLine
- CheckCommonLineData
- CheckOfOrientation
- CheckOrientationByDegree
- clusterLog2ToLog
- clusterLogASCII2Binary
- clusterShow
- CommonLineCalculation
- CommonLineRankCalc_k
- commonLinesSearchByVoting
- coordRotation
- ctfDeterminationFromMultiImage
- ctfDeterminationFromPhaseComparison
- ctfDeterminationFromThonRing
- ctfDetermine
- ctfDisplay
- ctfEnvelopFunction
- ctfFunction
- ctfFunctionServer
- ctfInfoSet
- ctfMultiFunction
- ctfWeightMapCreation
- ctfZeroPoint
- cufft
- dataAnalysis_kayabuki
- dcdAtomChangeDistanceFromAtom
- dcdAtomDistanceDistribution
- dcdCompareCA
- dcdDistanceAtomBetweenAtom
- dcdFilePrint
- dcdInfo
- dcdSelectAtoms
- dcdSerectAtom
- dcdTest
- dcdTimeSeriesBehavior
- defocusDeterminationFromThonRing
- Descartes2Polar
- Display2
- Display3
- dos2unix
- electronWaveLength
- emData2mrc
- energyTransferModelCheck
- energyTransferModelResultCheck
- Eos
- eosPointRotation
- EvaluateCorrelationMapwithCommonLine
- FETmapOrientationSearchBySimultaneousFitting
- FETOrientationSearchByAnnealing
- FETOrientationSearchByFeatureAlignment
- FETsmallMapSetCreate_forSimultaneousMinimization
- fft2d
- geogeoge
- gmolvie
- hf2000Init
- hf2000LenzCurrent
- hf2000SpecimenPosition
- hidaka2009
- homology2PG
- hostCondition
- imagesClustering
- imagesView
- imageView
- imodst2mrc
- ip2mrc
- khorosFilterGenerate
- largeIPInfo
- LCalculationForOrientationSearch
- ll2ltlg
- llDataAverage
- llDataAxisSearch
- llDataCompare
- llDataContributionCalcDifferentN
- llDataCTFCompensate
- llDataDump
- llDataEquatorAdd
- llDataExtract
- llDataFit
- llDataFitServer
- llDataInfo
- llDataLowPassFiltering
- llDataMultiCTFCompensation
- llDataNEstimation
- llDataNormalization
- llDataPrint
- llDataRescaling
- llDataResolutionCheck
- llDatarMaxLimit
- llDataRotation
- llDataSelectionEstimation
- llDataSeparate
- llDataWeightSet
- llExtract
- llExtractCtfinfFileCreate
- llExtractCtrlFileCreate
- llExtractWithLayerSeparation
- llExtractWithLayerSeparationCtrlFileCreate
- llExtractWithLayerSeparationCtrlFileCreateMyosin
- llExtractWithLayerSeparationFilamentInfo
- llExtractWithLayerSeparationServer
- llExtractWithLayerSeparationSingle
- ltlg2mrc
- ltlg2ps
- ltlgDataInfo
- mallocCheck
- marker2Dto3DEstimator
- matrix3DEulerAngleTransform
- matrix3DFromEulerAngle
- matrix3DInverse
- matrix3DToEulerAngle
- moi2mrc
- molecularEnvelopeResampling
- molecularWeightCalc
- molvie
- molvieDock
- molvieFlight
- molvieMrcViewer
- molvieProjection
- molvieViewer
- mrc2dsn6
- mrc2Dto3D
- mrc2Dto3DforVariation
- mrc2fld
- mrc2gif
- mrc2hdf
- mrc2lattice
- mrc2map
- mrc2mrc
- mrc2pov
- mrc2tiff
- mrc2viff
- mrc3DExtractZ
- mrc3Dto2D
- mrcFETnormalizeBySD
- mrcFFTBandPassFilter
- mrcFFTCTFCompensation
- mrcFFTDigitize
- mrcFFTExpression
- mrcFFTFibreDiagram
- mrcFFTFiltering
- mrcFFTInfo
- mrcFFTIQEstimation
- mrcFFTLayerLineCheck
- mrcFFTMedianFilter
- mrcFFTplainreduce
- mrcFFTProjection
- mrcFFTResampling
- mrcFFTShellInfo
- mrcFFTSizeChange
- mrcFFTSpectrum
- mrcFFTXFiltering
- mrcFTMeridianEquatorRedece
- mrcImage1dAverageByCorrelation
- mrcImage1dCutAverage
- mrcImage1DProjectionfrom2D
- mrcImage1dShiftAverageByAnnealing
- mrcImage1dShiftByCorrelation
- mrcImage2DBackProjection
- mrcImage2DProjection
- mrcImage2pdb
- mrcImage3DHighResoEmphasis
- mrcImage3DPad
- mrcImage3DPad2
- mrcImage3DSymmetryFind
- mrcImage3DWindowing
- mrcImageAbnormalValueRemove
- mrcImageActinSingleParticleAnalysis
- mrcImageAdaptiveBinalization
- mrcImageAdd
- mrcImageAddValue
- mrcImageAreaCalc
- mrcImageAsProbability
- mrcImageAssignedToTFofPDB
- mrcImageAutoCorrelationWithWindowing
- mrcImageAutoFilamentExtract
- mrcImageAutoFilamentExtractResultAnalysis
- mrcImageAutoRotationCorrelation
- mrcImageAutoRotationCorrelation3D
- mrcImageAutoRotationCorrelationResultPrint
- mrcImageAverage
- mrcImageBandPassFilter
- mrcImageBilateralFilter
- mrcImageBinalization
- mrcImageBlockMerge
- mrcImageBottomHatTransform
- mrcImageBoundaryInfo
- mrcImageBtest
- mrcImageCCDNoiseRemove
- mrcImageCenterDensityChange
- mrcImageCenterGet
- mrcImageCenterOfMassCalculate
- mrcImageCircumferentialProjection
- mrcImageClosing
- mrcImageClusterAnalysis
- mrcImageColoring
- mrcImageCommonLineSearch
- mrcImageConnection
- mrcImageConnectivityNumberCalc
- mrcImageContourSurfaceCreate
- mrcImageConvolution
- mrcImageCoordinateChange
- mrcImageCoreImageCalc
- mrcImageCorrelation
- mrcImageCorrelationInFourierSpace
- mrcImageCorrelationServer
- mrcImageCorrelationWithCTFCompensation
- mrcImageCrystalCreate
- mrcImageCTFCompensation
- mrcImageCTFCompensationForTiltImage
- mrcImageCTFDetermination
- mrcImageCTFObservation
- mrcImageCTFSN
- mrcImageCutAndSetInArray
- mrcImageCVE
- mrcImageCylinderSection
- mrcImageDeadPixelCorrection
- mrcImageDeconvolution
- mrcImageDensityChangeEstimation
- mrcImageDensityInfo
- mrcImageDensityNormalization
- mrcImageDensityNormalizationByImage
- mrcImageDilation
- mrcImageDisplayDensityAsTempFactor
- mrcImageDistanceConversion
- mrcImageDividedByFile
- mrcImageDivideInfoForTomography
- mrcImageDivideIntoTwoImages
- mrcImageEdgeEnhancement
- mrcImageEdgeImageGet
- mrcImageEnhancementWithFuzzySets
- mrcImageErosion
- mrcImageEstimateTiltImage
- mrcImageExpression
- mrcImageFeatureExtraction
- mrcImageFFT
- mrcImageFFTLayerLineExtraction
- mrcImageFilamentSearch
- mrcImageFilterCreate
- mrcImageFilteringbyFile
- mrcImageFilteringbyFileForVariance
- mrcImageFloating
- mrcImageFOMCalc
- mrcImageFourierPowerSpectrum
- mrcImageFourierShellCorrelation
- mrcImageFractalFourierShellCorrelation
- mrcImageFractalFrourierShellCorrelation
- mrcImageFTest
- mrcImageGaussDisc
- mrcImageGaussSphere
- mrcImageHeaderChange
- mrcImageHelicalAveraging
- mrcImageHelicalConvolution
- mrcImageHelicalMappingFrom2DImage
- mrcImageHelicalMasking
- mrcImageHelicalMaskingBy2DImage
- mrcImageHelicalProjection
- mrcImageHighlighting
- mrcImageHighPassFilter
- mrcImageInfo
- mrcImageInverseRadonTransform
- mrcImageLabeling
- mrcImageLogicalOperation
- mrcImageLowPassFilter
- mrcImageMagnificationChange
- mrcImageMake2DArrayImage
- mrcImageMakeCylinder
- mrcImageMakeDump
- mrcImageMakeFromTextFile
- mrcImageMakeSphere
- mrcImageMappingtoPdb
- mrcImageMasking
- mrcImageMaskingByImage
- mrcImageMergebyside
- mrcImageMirroring
- mrcImageModeChange
- mrcImageModelCreate
- mrcImageModelSubfilamentsCreate
- mrcImageMontageCreate
- mrcImageMove
- mrcImageMultiCTFCompensation
- mrcImageMultiCTFDetermination
- mrcImageMultiplying
- mrcImageMultiplyingbyFile
- mrcImageNeuralNetParticleExtraction
- mrcImageNeuralNetParticleLearning
- mrcImageNfoldAxisSearch
- mrcImageNLMeansFilter
- mrcImageNoiseAdd
- mrcImageNoiseCreate
- mrcImageNoiseReductionByRelaxation
- mrcImageNormalDistributionTest
- mrcImageNormalizedSubtraction
- mrcImageNormalizing
- mrcImageNullImageCreate
- mrcImageOddBoxel
- mrcImageOneLineSimilarityCalc
- mrcImageOpening
- mrcImageOrientationSearch
- mrcImageOrientationSearchByHigherSelection
- mrcImageOrientationSearchByHybridization
- mrcImageOrientationSearchBySimultaneousMinimization
- mrcImagePad
- mrcImagePanoramaCreate
- mrcImageParticleCandidateExtract
- mrcImagePCA
- mrcImagepdbFileReduce
- mrcImagePeakSearch
- mrcImagePhaseCTFCompensationFromCTFINFO
- mrcImagePixelDataGet
- mrcImagePolyROI
- mrcImagePosterization
- mrcImagePrint
- mrcImagePrint3D
- mrcImageProjection
- mrcImagePut3D
- mrcImageRadialDistribution
- mrcImageRadonTransform
- mrcImageRandomParticlesImageCreate
- mrcImageRealValueAdd
- mrcImageRectangleGet
- mrcImageRectangleGetByCorrelation
- mrcImageRefConv2D
- mrcImageRefCreate
- mrcImageRefFFTConv2D
- mrcImageRefScaleChangeWithPad
- mrcImageResolutionEstimateForFilaments
- mrcImageReverse
- mrcImageROI
- mrcImageROI3D
- mrcImageROIs
- mrcImageROItoPCAoutputImage
- mrcImageRotation
- mrcImageRotation3D
- mrcImageSamplingUnitChange
- mrcImageScalarAdd
- mrcImageSectionGet
- mrcImageSetFunction
- mrcImageShapeOrientation
- mrcImageShapePCA
- mrcImageShapePCAFit
- mrcImageShift
- mrcImageShiftFollowingGC
- mrcImageShrink
- mrcImageSiemensStar
- mrcImageSimilarImageSearch
- mrcImageSimilarityEstimate
- mrcImageSinogramCorrelation
- mrcImageSinogramCreate
- mrcImageSinogramFFT
- mrcImageSmoothing
- mrcImageSN
- mrcImageSolventFlattening
- mrcImageSphere
- mrcImageSphereCheck
- mrcImageSplit
- mrcImageSquare
- mrcImagesSinogramCorrelation
- mrcImageStack
- mrcImageStandardDeviation
- mrcImagestoRef
- mrcImageSubtraction
- mrcImageSuperResolution
- mrcImageSymmetryAverage
- mrcImageSymmetryCentreFind
- mrcImageSymmetryFind
- mrcImageTfunction
- mrcImageTiltAxisSearch
- mrcImageTiltAxisSearchHelp
- mrcImageToNAMDConstantForces
- mrcImageTopHatTransform
- mrcImageToPointsSet
- mrcImageTrans
- mrcImageTransformDescartesIntoPolar
- mrcImageTransformSign
- mrcImageTranspose
- mrcImageTTest
- mrcImageTwoImageTest
- mrcImageUnbentROI
- mrcImageUnexpectedMassFromPDB
- mrcImageUntwist
- mrcImageVarianceAnalysis
- mrcImageVarianceMap
- mrcImageVolumeCalc
- mrcImageWindowing
- mrcImageZPad
- mrcImateToPointsSet
- mrcInfo
- mrcInfoSet
- mrcManipulate_kaya
- mrcMask
- mrcMeanYlinePos
- mrcMirrorImageCreate
- mrcRadon2Dto3D
- mrcRefCoreGet
- mrcRefCorEstimate
- mrcRefCorModify
- mrcRefCorrelation
- mrcRefCorrelationConv
- mrcRefEstimate
- mrcRefFFTConvert
- mrcRefHeaderCreate
- mrcRefHighPassFilter
- mrcRefImageCorrelation
- mrcRefImageOmegaCorrelation
- mrcRefImagepwzCorEstimate
- mrcRefImagepwzCorModify
- mrcRefImagepwzCorPeakFind
- mrcRefImagepwzCorrelation
- mrcRefImagepwzCorrelationByFFT
- mrcRefImagepwzCorSmoothing
- mrcRefImagexaFit
- mrcRefLowPassFilter
- mrcRefNoiseAdd
- mrcRefNormalizing
- mrcRefPhaseImageCreate
- mrcRefSmoothing
- mrcRefz1ImageCorrelation
- mrcSinogramFET
- mrcSinogramFETcalcSDforNormalize
- mrcSinogramFETcalcWeight
- mrcSinogramFETcorrelationMap
- mrcSinogramFETnormalizedMap
- mrcSinogramFETreferredCorrelation
- mrcSinogramFETsmoothParameterMatching
- mrcView
- muscleSimulation
- obj3Don2DImageView
- openGLTest
- pdb2bender
- pdb2mrc
- pdb2mrc2d
- pdb2mrc2dWithCTF
- pdb2SketchMacro
- pdb2ucd
- pdbAtomSection
- pdbCAOnly
- pdbChargeFit
- pdbCoordAdd
- pdbCrystalCreate
- pdbDisplay
- pdbFileMerge
- pdbHelix
- pdbHomologySearch
- pdbInfo
- pdbListRMSDCalc
- pdbListVectorCalc
- pdbMatrixCreate
- pdbMolecularInterfaceFind
- pdbMove
- pdbNAMDRestraintCreate
- pdbNearAtomListShow
- pdbOneProteinGet
- pdbPCA
- pdbProteinIDSet
- pdbRhoFit
- pdbRhoFitCoiledCoil
- pdbRhoFitTm
- pdbRotation
- pdbSecondaryStructurePrint
- pdbShapeFit
- pdbSurface
- pdbTempFactorSet
- pdbTrans
- pdbTwoProteinFit
- pdbView
- pdbWaterAdd
- pgDataBaseSelectServer
- pgJournalSelect
- pgJournalSelectCORBAClient
- pgJournalSelectCORBAServer
- pgMemoSelectCORBAServer
- pgSelect
- pointAffineTransform
- pointsSetToPDB
- Polar2Descartes
- ProjectionDirectionMapCreate
- psFileMerge
- psFilePageMerge
- randomNormalGet
- randomUniformGet
- rasmonyo
- smolet
- StereoDisplay
- test
- TestForLcalculationOfOrientationSearchBySimultaneousMinimization
- tgaInfo
- tiff2mrc
- tiltInfoDetermine
- vector2pdb
- vectorImageNearestNeighborMethod
- Visualmake
- WeightCalculationOfCommonLineSearch
- WeightCalculationOfCommonLineSearchByAllSinogram
- WeigthCaluculationOfCommonLineCalculation
