Is there any software (desktop or online) that allows you to create customizable visualizations of the most current phylogenetic relationships between taxons? Let's say that I would like to have the illustration of phylogenetic relationship within extant mammals and extant birds and I would like to include different detail, like at the level of orders or at the level of families, or detailed relationship in selected order only. Then maybe change the layout little bit and export it into word processing software or save as vector graphics for further editing. Is there something like that? Something easy that students can use for the assignments and theses, etc. I think it would be handy if this would be possible in Tree of Life but I was not able to find any feature like this there. Do you have any ideas? Thank you!
Hi Pavel,
TimeTree is good for getting a decent divergence times between taxa.
OpenTreeofLife is great for getting cladograms of specific taxa. See https://github.com/OpenTreeOfLife/opentree/wiki/Open-Tree-of-Life-APIs. It is very easy to provide a list of species and output a tree. There are lots of other options and sources of tree. Check it out!
Adam
The onezoom site is nice. It does not do exaclty what you are asking for, but it is worth exploring anyway for ideas about tree representations.
http://www.onezoom.org/
Hi Pavel,
Have a look at the dendogram option and ape package in R.
https://rpubs.com/gaston/dendrograms
It's very useful to customize phylogenetic tree and the students can start to familiarize with the R environment. Hope this can help!
Cheers,
Ago
If you have an alignment of some description figtree is very customisable.
http://tree.bio.ed.ac.uk/software/figtree/
Hi,
I would recommend the ETE toolkit http://etetoolkit.org. It is great at visualizations and it comes with documentation and tutorials.
Cheers,
Eduardo
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