# A R/Bioconductor package for interactive 3D plot of epigenetic data or single cell data

## Documentation for package ‘geomeTriD’ version 1.2.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

geomeTriD-package | Interactive 3D plot of epigenetic data or single cell data
$-method | Class '"threeJsGeometry"'
$<--method | Class '"threeJsGeometry"'
alignCoor | Aligns two sets of genomic with x,y,z
availableGeometries | Available Geometries
create3dGenomicSignals | create 3d Geometry by given genomic signals
createTADGeometries | create 3d Geometry by given TADs
extractBackbonePositions | Extract the backbone coordinates from output of mdsPlot
geomeTriD | 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
renderthreeJsViewer | Shiny bindings for threeJsViewer
rglViewer | rgl Viewer View the 3d structure by rgl.
show-method | Class '"threeJsGeometry"'
smooth3dPoints | Calculate the smoothed curve for input GRanges
threeJsGeometry | Class '"threeJsGeometry"'
threeJsGeometry-class | Class '"threeJsGeometry"'
threejsOutput | Shiny bindings for threeJsViewer
threeJsViewer | threeJs Viewer The htmlwidgets viewer for threeJs.
threeJsViewer-shiny | Shiny bindings for threeJsViewer
view3dCells | Plot cell xyz data in 2d or 3d
view3dStructure | Plot GRanges xyz data in 2d or 3d