├── CMEAnalysisPackageManual.pdf ├── GPL-License.txt ├── README.md ├── img └── cmeAnalysis.jpg └── software ├── +cached ├── .TestImfinfo.m.swp ├── FileCache.m ├── FileCacheWithIndexing.m ├── MatFileCache.m ├── TestImfinfo.m ├── TestLoad.m ├── clear.m ├── imfinfo.m ├── load.m └── save.m ├── @AnisoGaussianDetectionProcess └── AnisoGaussianDetectionProcess.m ├── @BioFormatsReader ├── BioFormatsReader.m ├── getDeltaT.m ├── getXML.m └── showMetadata.m ├── @Channel └── Channel.m ├── @DataProcessingProcess └── DataProcessingProcess.m ├── @DetectionProcess └── DetectionProcess.m ├── @ExternalDetectionProcess └── ExternalDetectionProcess.m ├── @FigDisplay └── FigDisplay.m ├── @HCSReader └── HCSReader.m ├── @HistogramDisplay └── HistogramDisplay.m ├── @ImFolder └── ImFolder.m ├── @ImageAnalysisProcess └── ImageAnalysisProcess.m ├── @ImageData └── ImageData.m ├── @ImageDisplay └── ImageDisplay.m ├── @ImageOverlayDisplay └── ImageOverlayDisplay.m ├── @ImageProcessingProcess └── ImageProcessingProcess.m ├── @LineDisplay └── LineDisplay.m ├── @MaskIntersectionProcess └── MaskIntersectionProcess.m ├── @MaskProcess └── MaskProcess.m ├── @MaskProcessingProcess └── MaskProcessingProcess.m ├── @MotionAnalysisProcess └── MotionAnalysisProcess.m ├── @MovieData ├── MovieData.m ├── addAnalysisFolder.m ├── isequal.m ├── isequaln.m └── isequalwithequalnans.m ├── @MovieDataDisplay └── MovieDataDisplay.m ├── @MovieList ├── MovieList.m ├── addAnalysisFolder.m ├── buildByRegexp.m ├── minus.m └── plus.m ├── @MovieObject ├── MovieObject.m ├── addAnalysisFolder.m └── getOwnerAndProcess.m ├── @NonSingularProcess └── NonSingularProcess.m ├── @NucleiDetectionProcess └── NucleiDetectionProcess.m ├── @NucleiTrackingPackage └── NucleiTrackingPackage.m ├── @OmeroReader └── OmeroReader.m ├── @Package └── Package.m ├── @PointSourceDetectionProcess └── PointSourceDetectionProcess.m ├── @PointSourceDetectionProcess3D └── PointSourceDetectionProcess3D.m ├── @PostTrackingProcess └── PostTrackingProcess.m ├── @Process ├── Process.m └── getOwnerAndProcess.m ├── @Reader └── Reader.m ├── @SubResolutionProcess └── SubResolutionProcess.m ├── @TextDisplay └── TextDisplay.m ├── @TiffImagesReader └── TiffImagesReader.m ├── @TiffSeriesReader ├── TiffSeriesReader.m └── showMetadata.m ├── @TrackingPackage └── TrackingPackage.m ├── @TrackingProcess └── TrackingProcess.m ├── @Tracks ├── Tracks.m ├── addCoord.m ├── addOffset.m ├── addSphericalCoord.m ├── aliveMask.m ├── combine.m ├── disp.m ├── gapMask.m ├── getAddCoord.m ├── getGraph.m ├── getMatrix.m ├── getMergeIdx.m ├── getMergeSplitMatrix.m ├── getMergeSplitXY.m ├── getMovieInfo.m ├── getMultCoord.m ├── getOverlapping.m ├── getSeqOfEventsMatrix.m ├── getSparse.m ├── getSphericalCoord.m ├── getSplitIdx.m ├── getStruct.m ├── isstruct.m ├── mapFramesToTimepoints.m ├── multCoord.m ├── normalizeSeqOfEvents.m ├── numTimePoints.m ├── overlapping.m ├── plot.m ├── reindex.m ├── setFeatFromIdx.m ├── setMovieInfo.m ├── textGraph.m └── totalSegments.m ├── @TracksDisplay └── TracksDisplay.m ├── @TracksHandle ├── TracksHandle.m └── getNumSegmentsPerTrack.m ├── @TracksStruct ├── TracksStruct.m └── getNumSegmentsPerTrack.m ├── @UTrackPackage └── UTrackPackage.m ├── @UTrackPackage3D └── UTrackPackage3D.m ├── Animation.m ├── CachedProjectDynROIProcess.m ├── CachedSequence.m ├── CachedSequenceCellCache.m ├── CometDetectionProcess.m ├── CometPostTrackingProcess.m ├── ComputeMIPProcess.m ├── DASC_instruction.pdf ├── DASCtest.m ├── Detections.m ├── DynROI.m ├── FrameOfRef.m ├── GaussFitND.m ├── GaussFitND_gradient.m ├── GaussListND.m ├── HCSplatestack.m ├── HandleObject.m ├── ImAnimation.m ├── MTTracksDisplay.m ├── MakeQTMovie.m ├── PDF_BootCI_balanced.m ├── PlusTipTrackerPackage.m ├── PlusTipTrackerPackage3D.m ├── PointSourceDetectionProcess3DDynROI.m ├── ProjAnimation.m ├── ProjectDynROIProcess.m ├── ProjectDynROIRendering.m ├── SEM_calc.m ├── TrackingDynROIProcess.m ├── TracksROI.m ├── abstractProcessGUI.fig ├── abstractProcessGUI.m ├── addMovieViewerKeyboardShortcuts.m ├── addROIGUI.fig ├── addROIGUI.m ├── adtest1.m ├── all_insequence.m ├── analyzeBleaching.m ├── analyzeMovieMotion.m ├── anisoGaussian2DSupport.m ├── anisoGaussianDetectionProcessGUI.fig ├── anisoGaussianDetectionProcessGUI.m ├── asymDeterm2D3D.m ├── balancedPooling.m ├── barplot2.m ├── bfGetMemoDirectory.m ├── bfGetMemoizer.m ├── bfImport.m ├── binarySegmentLengths.m ├── bioformats ├── .nfs000000119521414d00002ee8 ├── NEWS.rst ├── bfCheckJavaMemory.m ├── bfCheckJavaPath.m ├── bfGetFileExtensions.m ├── bfGetPlane.m ├── bfGetPlaneAtZCT.m ├── bfGetReader.m ├── bfInitLogging.m ├── bfOpen3DVolume.m ├── bfTestInRange.m ├── bfUpgradeCheck.m ├── bfopen.m ├── bfsave.m ├── bioformats_package.jar ├── createMinimalOMEXMLMetadata.m └── private │ └── is_octave.m ├── blobSegmentThreshold.m ├── boxplot2.m ├── calcTrackMoments.m ├── catStruct.m ├── ccpSorter.m ├── centroid2D.m ├── centroid3D.m ├── centroidSubResFeatures2D.m ├── channelGUI.fig ├── channelGUI.m ├── checkallChannels_Callback.m ├── chooseTracks.m ├── cliGUI.m ├── cmeAnalysis.m ├── cmeAnalysis_DTonly.m ├── colocalizationLAP.m ├── combineGroupListFiles.m ├── cometDetection.m ├── cometDetectionProcessGUI.fig ├── cometDetectionProcessGUI.m ├── cometPostTrackingProcessGUI.fig ├── cometPostTrackingProcessGUI.m ├── computeMIPs.m ├── computeMovieMIP.m ├── convStruct2MatIgnoreMS.m ├── convStruct2MatNoMS.m ├── convertMat2Struct2.m ├── convnfft.m ├── coordAmpMatFromIndicesSparse.m ├── costMatLinearMotionCloseGaps2.m ├── costMatLinearMotionLink2.m ├── costMatRandomDirectedSwitchingMotionCloseGaps.m ├── costMatRandomDirectedSwitchingMotionCloseGapsGUI.fig ├── costMatRandomDirectedSwitchingMotionCloseGapsGUI.m ├── costMatRandomDirectedSwitchingMotionLink.m ├── costMatRandomDirectedSwitchingMotionLinkGUI.fig ├── costMatRandomDirectedSwitchingMotionLinkGUI.m ├── costMat_OpeningFcn.m ├── createSparseDistanceMatrix.m ├── cropMovie.m ├── cropMovieGUI.fig ├── cropMovieGUI.m ├── cropStack.m ├── cutFirstHistMode.m ├── cutTrack.m ├── dasAnalysis.m ├── dasCluster.m ├── dasClusterPlot_single.m ├── dasClusterPlot_single_contour.m ├── dasCohorts.m ├── dasComputeD.m ├── dasComputeDas.m ├── dasDataProcess.m ├── dasEpiTIRF.m ├── dasFigure1.m ├── dasFigure1_3D.m ├── dasMuiltiCondition.m ├── dasParameter.m ├── dasPdfConf.m ├── dasPlotBar.m ├── dasPlotCondition.m ├── dasPoolingBootstrap.m ├── dasRead.m ├── dasReadChild.m ├── dasSavePlot.m ├── dasSingleCondition.m ├── dasStat.m ├── dataPreparationGUI.fig ├── dataPreparationGUI.m ├── deleteChannel_Callback.m ├── densityplot.m ├── detectComets.m ├── detectComets3D.m ├── detectEDFOutliers.m ├── detectMovieAnisoGaussians.m ├── detectMovieComets.m ├── detectMovieNuclei.m ├── detectMoviePointSources.m ├── detectMoviePointSources3D.m ├── detectMovieSubResFeatures.m ├── detectNuclei.m ├── detectSubResFeatures2D_StandAlone.m ├── detectSubResFeatures2D_V2.m ├── detectionBinaryOverlay.m ├── discriminationMatrix.m ├── distnObj_plotPDFs_BootCI.m ├── distribTest.m ├── doc ├── AnisoGaussianDetectionProcess.pdf ├── CometDetectionProcess.pdf ├── CometPostTrackingProcess.pdf ├── DASC_instruction.pdf ├── DetectionProcess.pdf ├── MotionAnalysisProcess.pdf ├── NucleiDetectionProcess.pdf ├── PostTrackingProcess.pdf ├── SubResolutionProcess.pdf ├── TrackingPackage.pdf ├── TrackingProcess.pdf ├── addROIGUI.pdf ├── channelGUI.pdf ├── costMatRandomDirectedSwitchingMotionCloseGapsGUI.pdf ├── costMatRandomDirectedSwitchingMotionLinkGUI.pdf ├── dataPreparationGUI.pdf ├── kalmanInitializationGUI.pdf ├── movieDataGUI.pdf ├── movieSelectorGUI.pdf ├── movieViewer.pdf ├── plotTracks2D.pdf ├── plusTipCostMatCloseGapsGUI.pdf └── plusTipCostMatLinearMotionLinkGUI.pdf ├── epiTIRFAnalysis.m ├── estimTrackTypeParamLM2.m ├── estimTrackTypeParamRDS.m ├── extendedColors.m ├── extern ├── autumn.m ├── cache.m ├── colormap_helper.m ├── connectOmero.m ├── createMask.m ├── createObjectDictionary.m ├── exportImageAsOMETIFF.m ├── findOmero.m ├── getAnnotationTypes.m ├── getAnnotations.m ├── getDatasetFileAnnotations.m ├── getDatasets.m ├── getFileAnnotationContent.m ├── getFileAnnotations.m ├── getImageFileAnnotations.m ├── getImages.m ├── getObjectAnnotations.m ├── getObjectTypes.m ├── getObjects.m ├── getOmeroJars.m ├── getProjects.m ├── gray.m ├── hsv.m ├── imdisp.m ├── imseq.m ├── imstream.m ├── jet.m ├── linkAnnotation.m ├── loadOmero.m ├── omeroVersion.m ├── parfor_progressbar.m ├── rdouble.m ├── real2rgb.m ├── rescale.m ├── rlong.m ├── rstring.m ├── sc.m ├── str2color.m ├── structToHashMap.m ├── summer.m ├── tiffread.m ├── toJavaList.m ├── toMatlabList.m ├── toMatrix.m ├── updateFileAnnotation.m ├── updateOriginalFile.m ├── vline.m └── writeFileAnnotation.m ├── externalDetectionProcessGUI.fig ├── externalDetectionProcessGUI.m ├── fastBlobFinder.m ├── fillTrackGaps.m ├── filterGauss1D.m ├── filterGauss2D.m ├── filterGauss3D.m ├── filterGaussianFit2D.m ├── filterLoG.m ├── filterLoGND.m ├── findOverlapPSFs2D.m ├── findTrackGaps.m ├── fitExpToHist.m ├── fitGaussianMixtures2D.m ├── fitGaussianMixtures3D.m ├── fitGaussianModeToPDF.m ├── fitGaussians2D.m ├── fitGaussians3D.m ├── fitNGaussians2D.m ├── fitNGaussians2DVarSigma.m ├── formatPath.m ├── formatTickLabels.m ├── fsFigure.m ├── generateReport.m ├── getAveDispEllipseAll2.m ├── getCellDir.m ├── getCellMask.m ├── getDirFromPath.m ├── getExpDir.m ├── getFeatFromIdx.m ├── getFileStackNames.m ├── getFilenameBody.m ├── getFilesep.m ├── getFluorPropStruct.m ├── getFluorophoreHues.m ├── getGaussianPSFsigma.m ├── getGaussianPSFsigmaFrom3DData.m ├── getGaussianPSFsigmaFromData.m ├── getIntensityCohorts.m ├── getLCCBCopyright.m ├── getLCCBOmeroNamespace.m ├── getLensProperties.m ├── getLifetimeData.m ├── getLifetimeHistogram.m ├── getMovieName.m ├── getMultiplicity.m ├── getNumSegmentsPerTrack.m ├── getOmeroLists.m ├── getOmeroMovies.m ├── getPSNRDistribution.m ├── getParentDir.m ├── getRelocationDirs.m ├── getSearchRegionRDS.m ├── getShortPath.m ├── getTrackSEL.m ├── getTrackType.m ├── getVisitorIndex.m ├── getindexstart.m ├── graphBinaryOverlay.m ├── graphViewer.m ├── icon_ButtonDownFcn.m ├── icons ├── accepted 48 32x32.png ├── cancel 48 32x32.png ├── dialog-question-22x22.png ├── dialog-question-48x48.png ├── document-open-8.png └── warning 48 32x32.png ├── imDir.m ├── imFolderGUI.fig ├── imFolderGUI.m ├── imageDataGUI.fig ├── imageDataGUI.m ├── imageDataViewer.m ├── importExternalDetectData.m ├── importExternalDetection.m ├── imseriesmaskshowrgb.m ├── imseriesshow.m ├── inputImDPackageList.m ├── inputMLPackageList.m ├── inputParserRetrofit.m ├── insequence.m ├── insequence_and_scalar.m ├── intersectMovieMasks.m ├── isConcreteClass.m ├── isProcessOrMovieData.m ├── isProcessOrMovieObject.m ├── isSubclass.m ├── isposint.m ├── isvalid.m ├── joinColumns.m ├── kalmanGainLinearMotion.m ├── kalmanInitLinearMotion.m ├── kalmanInitializationGUI.fig ├── kalmanInitializationGUI.m ├── kalmanResMemLM.m ├── kalmanReverseLinearMotion.m ├── label2rgbND.m ├── labelToMovieInfo.m ├── lap.m ├── lineWithGaps.m ├── linkFeaturesKalmanSparse.m ├── listSelectGUI.fig ├── listSelectGUI.m ├── loadConditionData.m ├── loadFigureSettings.m ├── loadLCCBIcons.m ├── loadTrackSettings.m ├── loadTracks.m ├── locmax1d.m ├── locmax2d.m ├── locmax3d.m ├── locmin1d.m ├── manualSegmentationTweakGUI.m ├── markedWatershed.m ├── maskFromFirstMode.m ├── mex ├── KDTreeBallQuery.m ├── KDTreeBallQuery.mexa64 ├── KDTreeBallQuery.mexmaca64 ├── KDTreeBallQuery.mexmaci64 ├── KDTreeBallQuery.mexw64 ├── KDTreeRangeQuery.m ├── KDTreeRangeQuery.mexa64 ├── KDTreeRangeQuery.mexmaca64 ├── KDTreeRangeQuery.mexmaci64 ├── KDTreeRangeQuery.mexw64 ├── binterp.m ├── binterp.mexa64 ├── binterp.mexmaci64 ├── binterp.mexw64 ├── conv3fast.m ├── conv3fast.mexa64 ├── conv3fast.mexmaca64 ├── conv3fast.mexmaci64 ├── conv3fast.mexw64 ├── createDistanceMatrix.dll ├── createDistanceMatrix.m ├── createDistanceMatrix.mexa64 ├── createDistanceMatrix.mexglx ├── createDistanceMatrix.mexmaca64 ├── createDistanceMatrix.mexmaci ├── createDistanceMatrix.mexmaci64 ├── createDistanceMatrix.mexw64 ├── fitAnisoGaussian2D.m ├── fitAnisoGaussian2D.mexa64 ├── fitAnisoGaussian2D.mexmaca64 ├── fitAnisoGaussian2D.mexmaci64 ├── fitAnisoGaussian2D.mexw64 ├── fitGaussian2D.m ├── fitGaussian2D.mexa64 ├── fitGaussian2D.mexmaca64 ├── fitGaussian2D.mexmaci64 ├── fitGaussian2D.mexw64 ├── fitGaussian3D.m ├── fitGaussian3D.mexa64 ├── fitGaussian3D.mexmaca64 ├── fitGaussian3D.mexmaci64 ├── fitGaussian3D.mexw64 ├── fitGaussianMixture2D.m ├── fitGaussianMixture2D.mexa64 ├── fitGaussianMixture2D.mexmaca64 ├── fitGaussianMixture2D.mexmaci64 ├── fitGaussianMixture2D.mexw64 ├── fitGaussianMixture3D.m ├── fitGaussianMixture3D.mexa64 ├── fitGaussianMixture3D.mexmaca64 ├── fitGaussianMixture3D.mexmaci64 ├── fitGaussianMixture3D.mexw64 ├── mexLap.dll ├── mexLap.mexa64 ├── mexLap.mexglx ├── mexLap.mexmaca64 ├── mexLap.mexmaci ├── mexLap.mexmaci64 ├── mexLap.mexw64 ├── steerableDetector.m ├── steerableDetector.mexa64 ├── steerableDetector.mexmaca64 ├── steerableDetector.mexmaci64 ├── steerableDetector.mexw64 ├── vectorialPSF.m ├── vectorialPSF.mexa64 ├── vectorialPSF.mexmaca64 ├── vectorialPSF.mexmaci64 └── vectorialPSF.mexw64 ├── mkClrDir.m ├── mkdirRobust.m ├── mmfDistPV.m ├── mmfInitGuessLowerUpperBounds.m ├── mockMovieData.m ├── motionAnalysisProcessGUI.fig ├── motionAnalysisProcessGUI.m ├── movieDataGUI.fig ├── movieDataGUI.m ├── movieSelectorGUI.fig ├── movieSelectorGUI.m ├── movieViewer.m ├── movieViewerOptions.m ├── msgboxGUI.fig ├── msgboxGUI.m ├── multiscaleStochasticFiltering.m ├── naFromLensID.m ├── name2wavelength.m ├── newDiffTypeThreshold.mat ├── newDiffTypeThreshold1D.mat ├── noSettingsProcessGUI.fig ├── noSettingsProcessGUI.m ├── normList.m ├── notBoxPlot.m ├── nucleiDetectionProcessGUI.fig ├── nucleiDetectionProcessGUI.m ├── omeroCacheImport.m ├── omeroDataSelectionGUI.fig ├── omeroDataSelectionGUI.m ├── omeroImport.m ├── omeroLoginGUI.fig ├── omeroLoginGUI.m ├── omeroSave.m ├── optimalHistogram.m ├── overlayProjDetectionMovie.m ├── overlayProjDetections.m ├── overlayProjGraph.m ├── overlayProjTrackGapMovie.m ├── overlayProjTracks.m ├── overlayProjTracksMovie.m ├── packageGUI.fig ├── packageGUI.m ├── packageGUI_OpeningFcn.m ├── packageGUI_RefreshFcn.m ├── packageGUI_RunFcn.m ├── padarrayXT.m ├── parseProcessParams.m ├── pcombs.m ├── permKSTestMeanEDF.m ├── permTest.m ├── perpVector.m ├── pixPerFrame2umPerMin.m ├── plotCellArea.m ├── plotExampleTrack.m ├── plotInitiationDensity.m ├── plotIntensityCohorts.m ├── plotIntensityDistributions.m ├── plotLifetimeComparison.m ├── plotLifetimes.m ├── plotMaxIntensityDistribution.m ├── plotPDFconf.m ├── plotPSNRDistribution.m ├── plotScaleBar.m ├── plotTimeStamp.m ├── plotTrack.m ├── plotTracks2D.m ├── plotTracks3D.m ├── plotTracksDiffAnalysis2D.m ├── plusTipBreakNonlinearTracks.m ├── plusTipCostMatCloseGaps.m ├── plusTipCostMatCloseGapsGUI.fig ├── plusTipCostMatCloseGapsGUI.m ├── plusTipCostMatLinearMotionLink.m ├── plusTipCostMatLinearMotionLinkGUI.fig ├── plusTipCostMatLinearMotionLinkGUI.m ├── plusTipDynamParam.m ├── plusTipExtractGroupData.m ├── plusTipGetHits.m ├── plusTipGetSubtrackCoords.m ├── plusTipGetVelocitiesFromMat.m ├── plusTipGroupAnalysisGUI.fig ├── plusTipGroupAnalysisGUI.m ├── plusTipKalmanGainLinearMotion.m ├── plusTipKalmanInitLinearMotion.m ├── plusTipMakeBoxplots.m ├── plusTipMakeHistograms.m ├── plusTipMergeSubtracks.m ├── plusTipPerCellPlot.m ├── plusTipPoolGroupData.m ├── plusTipRemBegEnd.m ├── plusTipTestDistrib.m ├── plusTipTrackerPackageGUI.m ├── plusTipWithinGroupComparison.m ├── pointSourceDetection.m ├── pointSourceDetection3D.m ├── pointSourceDetectionProcessGUI.fig ├── pointSourceDetectionProcessGUI.m ├── pointSourceDetectionProcessGUI3D.fig ├── pointSourceDetectionProcessGUI3D.m ├── pointSourceStochasticFiltering.m ├── poolExperiments.m ├── postProcessMTTracks.m ├── postProcessMovieComets.m ├── prepPerChannelParams.m ├── processGUI_ApplyFcn.m ├── processGUI_OpeningFcn.m ├── progressText.m ├── projMontage.m ├── projectCoordOntoDir.m ├── randSampling.m ├── randomColormap.m ├── readIXMHTDFileM.m ├── readtiff.m ├── recursiveDir.m ├── recycleProcessGUI.fig ├── recycleProcessGUI.m ├── relocatePath.m ├── robustMean.m ├── rotateXTickLabels.m ├── roundOddOrEven.m ├── runDetection.m ├── runLifetimeAnalysis.m ├── runProcesses.m ├── runSlaveChannelClassification.m ├── runTrackProcessing.m ├── runTracking.m ├── scaleContrast.m ├── scaleEDFs.m ├── scattercontour.m ├── scriptCorrectImageDrift.m ├── sec2struct.m ├── selectChannel_Callback.m ├── selectConditionData.m ├── setErrorbarStyle.m ├── setupFigure.m ├── shadedErrorBarV2.m ├── sigstar.m ├── simulatedPredictionVoting.m ├── sortStringsByToken.m ├── sortTiffStacks.m ├── spatialMovAveBG.m ├── splitPerChannelParams.m ├── sprintfPath.m ├── stackRead.m ├── stackWrite.m ├── stairsXT.m ├── stamp3d.m ├── subResolutionProcessGUI.fig ├── subResolutionProcessGUI.m ├── summarizeDiffAnRes.m ├── swapMaskValues.m ├── testCMEanalysis.m ├── thresholdFluorescenceImage.m ├── thresholdFluorescenceImageFewBg.m ├── thresholdOtsu.m ├── thresholdRosin.m ├── tif3Dread.m ├── timeColormap.m ├── trackBinaryOverlay.m ├── trackCloseGapsKalmanSparse.m ├── trackDiffusionAnalysis1.m ├── trackMSSAnalysis.m ├── trackMovie.m ├── trackingProcessGUI.fig ├── trackingProcessGUI.m ├── uTrackPackageGUI.m ├── uTrackParCluster.m ├── u_quantify.m ├── userfcn_checkAllMovies.m ├── userfcn_drawIcon.m ├── userfcn_enable.m ├── userfcn_lampSwitch.m ├── userfcn_saveCheckbox.m ├── vennplot.m ├── wavelength2rgb.m ├── weightedStats.m └── whichMatFile.m /CMEAnalysisPackageManual.pdf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/DanuserLab/cmeAnalysis/HEAD/CMEAnalysisPackageManual.pdf -------------------------------------------------------------------------------- /GPL-License.txt: 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