Track Cells, Analyze Cell Trajectories and Compute Migration
Statistics
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Documentation for package ‘cellmigRation’ version 1.12.0
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| aggregateFR | Aggregating the outcome of several experiments or conditions. |
| aggregateTrackedCells | Aggregate trackedCells Objects |
| CellMig | The CellMig Class. |
| CellMig-class | The CellMig Class. |
| CellMigPCA | PCA |
| CellMigPCAclust | PCA Clusters |
| CellMigPCAclustALL | PCA Clusters of different conditions |
| CellTracker | Compute Cell Tracks |
| ComputeTracksStats | Compute Tracks Stats |
| DiAutoCor | Direction AutoCorrelation |
| DiRatio | Directionality Table |
| DiRatioPlot | Directionality Ratio plots |
| EstimateDiameterRange | Detect Paricle Diameters in a Numeric matrix |
| FilterTrackedCells | Filter an Aggregated Table of Cell Tracks |
| FinRes | Final Results |
| FMI | Forward Migration Index |
| ForwardMigration | Forward Migration |
| getAvailableAggrMetrics | Get Available Aggregate Cell Metrics |
| getCellImages | Method getCellImages |
| getCellImages-method | Method getCellImages |
| getCellMigSlot | Method getCellMigSlot |
| getCellMigSlot-method | Method getCellMigSlot |
| getCellsMeta | Get MetaData |
| getCellsStats | Get Cell migration stats |
| getCellTrackMeta | Method getCellTrackMeta |
| getCellTrackMeta-method | Method getCellTrackMeta |
| getCellTracks | Method getCellTracks |
| getCellTracks-method | Method getCellTracks |
| getCellTrackStats | Method getCellTrackStats |
| getCellTrackStats-method | Method getCellTrackStats |
| getDACtable | Getting the Direction AutoCorrelation |
| getDiRatio | Getting the Directionality Table |
| getFMItable | Getting the Forward Migration Index |
| getForMigtable | Getting the Forward Migration |
| getImageCentroids | Method getImageCentroids |
| getImageCentroids-method | Method getImageCentroids |
| getImageStacks | Get Image Stacks |
| getMSDtable | Getting the Mean Square Displacement |
| getOptimizedParameters | Get Auto Optimized Parameters |
| getOptimizedParams | Method getOptimizedParams |
| getOptimizedParams-method | Method getOptimizedParams |
| getPerAndSpeed | Getting the table of Persistence and Speed. |
| getPopulationStats | Get Cell population stats |
| getProcessedImages | Method getProcessedImages |
| getProcessedImages-method | Method getProcessedImages |
| getProcessingStatus | Method getProcessingStatus |
| getProcessingStatus-method | Method getProcessingStatus |
| getResults | Final Results |
| getTracks | Get Track Data |
| getVACtable | Getting the Velocity AutoCorrelation |
| initialize-method | The CellMig Class. |
| initialize-method | The trackedCells Class. |
| LoadTiff | Import Image from TIFF |
| MSD | Mean Square Displacement |
| OptimizeParams | Optimize Detection Params |
| PerAndSpeed | Persistence and Speed |
| plot3DAllTracks | A 3D rose-plot of all cells |
| plot3DTracks | A 3D rose-plot |
| plotAllTracks | A 2D rose-plot |
| plotSampleTracks | A 2D rose-plot of sample cells |
| PlotTracksSeparately | A graphical display of the track of each cell. |
| rmPreProcessing | Data preprocessing for random migration (RM) |
| setAnalyticParams | Method setAnalyticParams |
| setAnalyticParams-method | Method setAnalyticParams |
| setCellMigSlot | Method setCellMigSlot |
| setCellMigSlot-method | Method setCellMigSlot |
| setCellsMeta | Set MetaData |
| setCellTracks | Method setCellTracks |
| setCellTracks-method | Method setCellTracks |
| setExpName | Method setExpName |
| setExpName-method | Method setExpName |
| setOptimizedParams | Method setOptimizedParams |
| setOptimizedParams-method | Method setOptimizedParams |
| setProcessedImages | Method setProcessedImages |
| setProcessedImages-method | Method setProcessedImages |
| setProcessingStatus | Method setProcessingStatus |
| setProcessingStatus-method | Method setProcessingStatus |
| setTrackedCellsMeta | Method setTrackedCellsMeta |
| setTrackedCellsMeta-method | Method setTrackedCellsMeta |
| setTrackedCentroids | Method setTrackedCentroids |
| setTrackedCentroids-method | Method setTrackedCentroids |
| setTrackedPositions | Method setTrackedPositions |
| setTrackedPositions-method | Method setTrackedPositions |
| setTrackingStats | Method setTrackingStats |
| setTrackingStats-method | Method setTrackingStats |
| trackedCells | The trackedCells Class. |
| trackedCells-class | The trackedCells Class. |
| TrajectoryDataset | Trajectories of 350 cells |
| VeAutoCor | Velocity AutoCorrelation |
| visualizeCellTracks | Visualize Cell Tracks originating at an Image Stack |
| VisualizeStackCentroids | Visualize Cells in an Image Stack |
| wsaPreProcessing | Data preprocessing for wound scratch assay (WSA). |