clono.plot {iCellR} | R Documentation |
This function takes an object of class iCellR and provides plots for clonotypes.
clono.plot( x = NULL, plot.data.type = "tsne", clono = 1, clust.dim = 2, cell.size = 1, cell.colors = c("red", "gray"), box.cell.col = "black", back.col = "white", cell.transparency = 0.5, interactive = TRUE, out.name = "plot" )
x |
An object of class iCellR. |
plot.data.type |
Choose from "tsne" and "pca", default = "tsne". |
clono |
A clonotype name to be plotted, default = 1. |
clust.dim |
2 for 2D plots and 3 for 3D plots, default = 2. |
cell.size |
A number for the size of the points in the plot, default = 1. |
cell.colors |
Colors for heat mapping the points in "scatterplot", default = c("gray","red"). |
box.cell.col |
Choose a color for box default = "black". |
back.col |
A color for the plot background, default = "black". |
cell.transparency |
Color transparency for points, default = 0.5. |
interactive |
If set to TRUE an intractive HTML file will be created, default = TRUE. |
out.name |
If "interactive" is set to TRUE, the out put name for HTML, default = "plot". |
An object of class iCellR.