R help - Nov 2020 - ggtree: color-code multiple paraphyletic clades

I've been using groupOTU to color paraphyletic clades in my tree based on
lists of tips, but I have multiple clades I want to highlight.  Is there
some way to use ggplot to indicate multiple paraphyletic clades?

Thank you

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Hello,

You should post a reproducible example like the posting guide asks you to.
In the mean time, are you looking for [1], section Group Clades, by 
package ggtree author? It even seems to be the package vignette.

[1] 
https://bioconductor.riken.jp/packages/3.8/bioc/vignettes/ggtree/inst/doc/treeManipulation.html


Hope this helps,

Rui Barradas

?s 21:59 de 11/11/20, April Ettington escreveu:
> I've been using groupOTU to color paraphyletic clades in my tree based
on
> lists of tips, but I have multiple clades I want to highlight.  Is there
> some way to use ggplot to indicate multiple paraphyletic clades?
> 
> Thank you
> 
> 	[[alternative HTML version deleted]]
> 
> ______________________________________________
> R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide
http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
>

Thank you, it seems the solution is to define the nodes in groupOTU using a
list of vectors.

On Thu, Nov 12, 2020 at 12:15 PM Rui Barradas <ruipbarradas at sapo.pt>
wrote:
> Hello,
>
> You should post a reproducible example like the posting guide asks you to.
> In the mean time, are you looking for [1], section Group Clades, by
> package ggtree author? It even seems to be the package vignette.
>
> [1]
>
>
https://bioconductor.riken.jp/packages/3.8/bioc/vignettes/ggtree/inst/doc/treeManipulation.html
>
>
> Hope this helps,
>
> Rui Barradas
>
> ?s 21:59 de 11/11/20, April Ettington escreveu:
> > I've been using groupOTU to color paraphyletic clades in my tree
based on
> > lists of tips, but I have multiple clades I want to highlight.  Is
there
> > some way to use ggplot to indicate multiple paraphyletic clades?
> >
> > Thank you
> >
> >       [[alternative HTML version deleted]]
> >
> > ______________________________________________
> > R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
> > https://stat.ethz.ch/mailman/listinfo/r-help
> > PLEASE do read the posting guide
> http://www.R-project.org/posting-guide.html
> > and provide commented, minimal, self-contained, reproducible code.
> >
>
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