Interactive 3D plot of epigenetic data or single cell data

geomeTriD (Three Dimensional Geometry Package) create interactive 3D plots using the GL library with the 'three.js' visualization library (https://threejs.org) or the rgl library. In addition to creating interactive 3D plots, the application also generates simplified models in 2D. These 2D models provide a more straightforward visual representation, making it easier to analyze and interpret the data quickly. This functionality ensures that users have access to both detailed three-dimensional visualizations and more accessible two-dimensional views, catering to various analytical needs.

See also

Useful links:

• https://github.com/jianhong/geomeTriD

• Report bugs at https://github.com/jianhong/geomeTriD/issues

Author

Maintainer: Jianhong Ou jou@morgridge.org (ORCID)

Examples

if(interactive()){
  ## quick start from a simple data
  library(geomeTriD)
  set.seed(123)
  obj <- GRanges("1", IRanges(seq.int(10), width = 1),
                  x = sample.int(10, 10),
                  y = sample.int(10, 10),
                  z = sample.int(10, 10)
                )
  feature.gr <- GRanges("1", IRanges(c(3, 7), width = 3),
                        label = c("gene1", "gene2"),
                        col = c("red", "blue"),
                        type = "gene"
  )
  view3dStructure(obj, feature.gr,
                  renderer = "threejs",
                  coor_mark_interval = 5, coor_tick_unit = 2
  )
}