Man pages for heilandd/SPATAwrappers
What the Package Does (One Line, Title Case)
| addNucleusPosition | addNucleusPosition |
| CellProfiler2Matlab | CellProfiler2Matlab |
| CellProfilerCellDistance | ImportCellProfiler data |
| CellProfilerDistancePlot | ImportCellProfiler data |
| CellProfilerImport | ImportCellProfiler data |
| CellProfilerImportObjectPositions | ImportCellProfiler data |
| CellProfilerPlotDistance | ImportCellProfiler data |
| CellProfilerPlotDistanceAddLayer | ImportCellProfiler data |
| check_color_to | check_color_to |
| createInternalReferenceDataset | createInternalReferenceDataset |
| Create.ref.bins | Create.ref.bins |
| createReferenceDIM | createReferenceDIM |
| createShell | createShell |
| DownScaleSeurat | Run single-cell mapping |
| getAdjacentSpots | getAdjacentSpots |
| getCNVStatistics | getCNVStatistics |
| getDistance | getDistance |
| getMoransI | getMoransI |
| getNucleusPosition | getNucleusPosition |
| getSingleCellDeconv | runRCTD cell-type deconvolution |
| getSNV | getSNV |
| getSNV.spotwise | getSNV |
| getSpatialAdjacentRegression | Spatial Adjacent Regression |
| getSubColors | Run single-cell mapping |
| getSurroundedSpots | getSurroundedSpots |
| getSurroundedSpots.sc | getSurroundedSpots |
| ggLayerGenSet | ggLayerGenSet |
| grapes-or-or-grapes | intern |
| hlpr_bins | hlpr_bins |
| hlpr_merge.pos | hlpr_merge.pos |
| hlpr_normalize_imap | Normalize gene or gene set values |
| hlpr_smooth_shiny | Smooth variable spatially in mini-shiny-apps |
| importSNVmatrix | importSNVmatrix |
| inferEnhancedPCA | inferEnhancedPCA |
| inferJuxtaposition | Juxtaposition in stRNA-seq |
| inferSpatial.ac | inferSpatial.mc |
| inferSpatial.mc | inferSpatial.mc |
| inferSpatial.plot | inferSpatial.mc |
| inferSpotlight | inferSpotlight |
| jaccard | jaccard |
| MergeInferCNVSeurat | MergeInferCNVSeurat |
| moduleSurfacePlotServer | Server of the surface plot module |
| moduleSurfacePlotUI | UI of the surface plot module |
| plot2DInterpolation | plot2DInterpolation |
| plotCNV | plotCNV |
| plotCNVPoints | plotCNVPoints |
| plotCNV.RefMode | plotCNV.RefMode |
| plotColorOverlap | plotColorOverlap |
| plotCoverage | plotCoverage |
| plotEnhancedCluster | plotEnhancedCluster |
| plotEnhancedNucleusFeature | Enhanced Nucleus Feature |
| plotHeatmap | plotHeatmap |
| plotJuxtaposition | plotJuxtaposition |
| plotJuxtapositionSPATA | plotJuxtapositionSPATA |
| plotSNVtype | plotSNVtype |
| plotSPATAEnhancer | plotSPATAEnhancer |
| plotStreamlines | plotStreamlines |
| plotSurfaceInteractiveSingleCell | plotSurfaceInteractiveSingleCell |
| plotSurfaceMixed | plotSurfaceMixed |
| plotVectorFields | plotVectorFields |
| rnmf | rnmf |
| runBayesSpace | runBayesSpace Cluster |
| runCNV.Coverage | Create.ref.bins |
| runCNV.Normalization | runCNVNormalization |
| runFscore | run.fscore |
| runFscore.mat | run.fscore.mat |
| runFullclustervalidation | run.full.cluster.validation (for Spatial Paper Beta... |
| runMapping | Run single-cell mapping |
| runNMF | runNMF |
| runPCAprojection | run.full.cluster.validation (for Spatial Paper Beta... |
| runRCTD | runRCTD cell-type deconvolution |
| run.SNN.stability | Juxtaposition in stRNA-seq |
| runSpatialRegression | runSpatialRegression |
| runSpotwiseSNV | runSpotwiseSNV |
| runVectorFields | runVectorFields |
| tab_surface_plots_app | Surface plot tab - classic |
| tab_surface_plots_return | Surface plot tab - return |
