CFmatrix_convert_and_plot

library(converTree)

convert to normally tree data

CFmatrix_file = system.file("extdata", "ground_truth_tree.CFMatrix", package = "converTree")
t_all = cf2treedata(CFmatrix_file)
#> Tree data bone seems ok

vis

single color highlight mutations

treedata2gv(t_all,gvfile="tree.gv",highlight = c("M3","M42","M1"))
res=DiagrammeR::grViz("tree.gv")
res

single color highlight node

treedata2gv(t_all,gvfile="tree1.gv",highlight = c("M3","M42","M1"),highcolor = c("red","blue","#e67b2b"),
            lightNodeKey=c("M4","M9","sc8","M1"),lightNodeColor='#b3e2cd')
res1=DiagrammeR::grViz("tree1.gv")
res1

multicolored setting of highlight

treedata2gv(t_all,gvfile="tree2.gv",highlight = c("M3","M42","M1"),highcolor = c("red","blue","#e67b2b"))
res2=DiagrammeR::grViz("tree2.gv")
res2

highlight Node

treedata2gv(t_all,gvfile="tree3.gv",highlight = c("M3","M42","M1"),highcolor = c("red","blue","#e67b2b"),
            lightNodeKey=c("M4","M9","sc8","M1"),lightNodeColor=c('#f4cae4','#fdcdac','#cbd5e8','#b3e2cd'))
res3=DiagrammeR::grViz("tree3.gv")
res3

save plot to file

svg=DiagrammeRsvg::export_svg(res3)
writeLines(svg,con = "test3.svg")