battree.nexus
<https://drive.google.com/file/d/1n_sSFcP23nyLiIC49wcEZXUCVWIpOYk1/view?usp=drive_web>
BayesPCM9.Log.txt
<https://drive.google.com/file/d/168ii9utfUlUEqq2LXDy3C9FKe7bCm9w9/view?usp=drive_web>
BayesPCM9.Output.trees
<https://drive.google.com/file/d/1th9D4-PMo9f8U9vlHARxFgnxUx8nUPUD/view?usp=drive_web>
BayesPCM9.Schedule.txt
<https://drive.google.com/file/d/1nhUUcSU6xJrgIeup_sDLABe4WXh6Y3Rf/view?usp=drive_web>
BayesPCM9.Stones.txt
<https://drive.google.com/file/d/1tOcDqbMw840CkErCgiOiuj2Sf0-r_vCl/view?usp=drive_web>
BayesPCM9.VarRates.txt
<https://drive.google.com/file/d/1wNhBg9QvKj_5RPPE1wK2C1AeiWODEaPL/view?usp=drive_web>
Dear All
Is there a way in BTprocessR or BTRTools (or any other package) to plot a
tree in such a way that the branch lengths are scaled by rate. Colour
gradients are a bit difficult to compare across many structures. I am
looking for a plot where faster rates make branches longer and slower rates
produce shorter branches.
The plotshifts function in BTRTools plots the tree with color gradient
depicting the rates. I am thinking maybe there is an option I am missing
out that simply does the trick to plot branches scaled by rate?
Please also help me with how to make the legend not plot over the scale. I
am not getting how to command the legend positions, I get errors if I try
the available option, maybe I am missing out something.
My code goes like this:
btresults9 <- rjpp(rjlog = "BayesPCM9.VarRates.txt", rjtrees =
"BayesPCM9.Output.trees",tree = my.tree, burnin = 0, thinning = 1, verbose
= TRUE)
plotShifts(btresults9, plot.options = list(layout = c("e")), tips = T)
I have also attached the files here
Thank you.
Regards,
Greg.
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