Draw a combined plot with ggtree and gggenomes

[WRran-Hydrogen]

Dear @thackl

Mapping genomes with gggenomes is very convenient and trendy, but adding a clustering tree to a large number of genome maps is also of some use, can ggtree be used in conjunction with gggenomes? This would also allow for sorting the geom_bin_label plotted by gggenomes

Best！

[thackl]

Yes, absolutely. Check out the pick_by_tree() examples here: https://thackl.github.io/gggenomes/reference/pick.html

[WRran-Hydrogen]

This is a very good function, if I knew this function earlier I do not have to sort genome map and then use illustrator to manually splice the tree file, but the function is still not perfect in that there is no complete genome is not fully aligned branches, but it is good enough to use. Thanks to the author!

[thackl]

That's because both of your plots have slightly different y-scales. You can match them up with scale_y_continuous(expand...) and/or https://ggplot2.tidyverse.org/reference/expand_limits.html. See here for a bit more complex example https://thackl.github.io/ggtree-composite-plots