plotTree {CytoTree} | R Documentation |
plot MST of CYT
plotTree( object, cex.size = 1, color.by = "cell.number", size.by = "cell.number", as.tree = FALSE, root.id = NULL, show.node.name = FALSE )
object |
a CYT object |
cex.size |
numeric. size cex of the dot |
color.by |
numeric. size color theme of the dot |
size.by |
numeric. size theme of the dot |
as.tree |
logical. Whether to show node as tree |
root.id |
numeric. Root id of the tree, if as.tree is TRUE |
show.node.name |
logical. whether to show node name |
ggplot2 figure
cyt.file <- system.file("extdata/cyt.rds", package = "CytoTree") cyt <- readRDS(file = cyt.file) plotTree(cyt) plotTree(cyt, show.node.name = TRUE) plotTree(cyt, color.by = "CD43", show.node.name = TRUE, cex.size = 1) plotTree(cyt, color.by = "D0.percent", show.node.name = TRUE, cex.size = 1) plotTree(cyt, color.by = "D2.percent", show.node.name = TRUE, cex.size = 1) plotTree(cyt, color.by = "pseudotime", cex.size = 1)