LRPlot: Plotting ligand-receptor pairs
In Coolgenome/iTALK: Characterize and Illustrate Intercellular Communication

Description Usage Arguments Value References

This function loads the significant interactions as a dataframe. A circle plot will be generated using package circlize. The width of the arrow represents the expression level/log fold change of the ligand; while the width of arrow head represents the expression level/log fold change of the receptor. Different color and the type of the arrow stands for whether the ligand and/or receptor are upregulated or downregulated. Users can select the colors represent the cell type by their own or chosen randomly by default.

LRPlot(data, datatype, gene_col = NULL, transparency = 0.5,
  link.arr.lwd = 1, link.arr.lty = NULL, link.arr.col = NULL,
  link.arr.width = NULL, link.arr.type = NULL, facing = "clockwise",
  cell_col = NULL, print.cell = TRUE, track.height_1 = uh(2, "mm"),
  track.height_2 = uh(12, "mm"), annotation.height_1 = 0.01,
  annotation.height_2 = 0.01, text.vjust = "0.4cm", ...)

`data`	A dataframe contains significant ligand-receptor pairs and related information such as expression level/log fold change and cell type
`datatype`	Type of data. Options are "mean count" and "DEG"
`gene_col`	Colors used to represent different categories of genes.
`transparency`	Transparency of link colors, 0 means no transparency and 1 means full transparency. If transparency is already set in col or row.col or column.col, this argument will be ignored. NAalso ignores this argument.
`link.arr.lwd`	line width of the single line link which is put in the center of the belt.
`link.arr.lty`	line type of the single line link which is put in the center of the belt.
`link.arr.col`	color or the single line link which is put in the center of the belt.
`link.arr.width`	size of the single arrow head link which is put in the center of the belt.
`link.arr.type`	Type of the arrows, pass to Arrowhead. Default value is triangle. There is an additional option big.arrow
`facing`	Facing of text.
`cell_col`	Colors used to represent types of cells. If set NULL, it will be generated randomly
`print.cell`	Whether or not print the type of cells on the outer layer of the graph.
`track.height_1`	height of the cell notation track
`track.height_2`	height of the gene notation track
`annotation.height_1`	Track height corresponding to values in annotationTrack.
`annotation.height_2`	Track height corresponding to values in annotationTrack.
`text.vjust`	adjustment on ’vertical’ (radical) direction. Besides to set it as numeric values, the value can also be a string contain absoute unit, e.g. "2.1mm", "-1 inche", but only "mm", "cm", "inches"/"inche" are allowed.