Package index • geomeTriD

All functions
`SDC()`	Distance to centroid
`SRD()`	Sequence Relabeling Distance
`alignCoor()`	Aligns two sets of genomic with x,y,z
`autoK()`	Automate Cluster Number Selection
`availableGeometries`	Available Geometries
`cellClusters()` `cellDistance()`	cluster single cell 3D structures
`create3dGenomicSignals()`	create 3d Geometry by given genomic signals
`createTADGeometries()`	create 3d Geometry by given TADs
`extractBackbonePositions()`	Extract the backbone coordinates from output of mdsPlot
`fill_NA()`	fill NA values by upstream and downstream points
`gaussianBlur()`	Gaussian blur
`geomeTriD` `geomeTriD-package`	Interactive 3D plot of epigenetic data or single cell data
`loopBouquetPlot()`	plot GInteractions
`mdsPlot()`	Plot genomic interactions by multi-dimensional scaling plot
`pointCluster()`	Perform DBSCAN clustering
`rglViewer()`	rgl Viewer View the 3d structure by rgl.
`smooth3dPoints()`	Calculate the smoothed curve for input GRanges
`spatialDistanceMatrix()` `boundaryScore()` `boundaryScoreTAD()` `hierarchicalClusteringTAD()` `compartment()` `spatialDistanceHeatmap()`	Create the spatial distance matrix
`threeJsGeometry()` `$`(<threeJsGeometry>) `$<-`(<threeJsGeometry>) `show(<threeJsGeometry>)`	Class `"threeJsGeometry"`
`threejsOutput()` `renderthreeJsViewer()`	Shiny bindings for threeJsViewer
`threeJsViewer()`	threeJs Viewer The htmlwidgets viewer for threeJs.
`view3dCells()`	Plot cell xyz data in 2d or 3d
`view3dStructure()`	Plot GRanges xyz data in 2d or 3d

Reference