R: ggtree how to show numbers for each node?
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Please post either published image or an example synthetic image of what you want. In the mean time, refer to this: https://guangchuangyu.github.io/ggtree-book/chapter-treeio.html#functions-demonstrated and this: https://guangchuangyu.github.io/ggtree-book/chapter-ggtree.html#layouts-of-phylogenetic-tree